1
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Bains RK, Nasseri SA, Liu F, Wardman JF, Rahfeld P, Withers SG. Characterization of a new family of 6-sulfo-N-acetylglucosaminidases. J Biol Chem 2023; 299:105214. [PMID: 37660924 PMCID: PMC10570127 DOI: 10.1016/j.jbc.2023.105214] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2023] [Revised: 08/12/2023] [Accepted: 08/18/2023] [Indexed: 09/05/2023] Open
Abstract
Sulfation is widespread in nature and plays an important role in modulating biological function. Among the strategies developed by microbes to access sulfated oligosaccharides as a nutrient source is the production of 6-sulfoGlcNAcases to selectively release 6-sulfoGlcNAc from target oligosaccharides. Thus far, all 6-sulfoGlcNAcases identified have belonged to the large GH20 family of β-hexosaminidases. Ηere, we identify and characterize a new, highly specific non-GH20 6-sulfoGlcNAcase from Streptococcus pneumoniae TIGR4, Sp_0475 with a greater than 110,000-fold preference toward N-acetyl-β-D-glucosamine-6-sulfate substrates over the nonsulfated version. Sp_0475 shares distant sequence homology with enzymes of GH20 and with the newly formed GH163 family. However, the sequence similarity between them is sufficiently low that Sp_0475 has been assigned as the founding member of a new glycoside hydrolase family, GH185. By combining results from site-directed mutagenesis with mechanistic studies and bioinformatics we provide insight into the substrate specificity, mechanism, and key active site residues of Sp_0475. Enzymes of the GH185 family follow a substrate-assisted mechanism, consistent with their distant homology to the GH20 family, but the catalytic residues involved are quite different. Taken together, our results highlight in more detail how microbes can degrade sulfated oligosaccharides for nutrients.
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Affiliation(s)
- Rajneesh K Bains
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia, Canada; Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada
| | - Seyed A Nasseri
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia, Canada; Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada
| | - Feng Liu
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia, Canada; Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada
| | - Jacob F Wardman
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia, Canada; Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada; Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia, Canada
| | - Peter Rahfeld
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia, Canada; Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada
| | - Stephen G Withers
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia, Canada; Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada; Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia, Canada.
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2
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Zhong X, D’Antona AM. A potential antibody repertoire diversification mechanism through tyrosine sulfation for biotherapeutics engineering and production. Front Immunol 2022; 13:1072702. [PMID: 36569848 PMCID: PMC9774471 DOI: 10.3389/fimmu.2022.1072702] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Accepted: 11/23/2022] [Indexed: 12/13/2022] Open
Abstract
The diversity of three hypervariable loops in antibody heavy chain and light chain, termed the complementarity-determining regions (CDRs), defines antibody's binding affinity and specificity owing to the direct contact between the CDRs and antigens. These CDR regions typically contain tyrosine (Tyr) residues that are known to engage in both nonpolar and pi stacking interaction with antigens through their complementary aromatic ring side chains. Nearly two decades ago, sulfotyrosine residue (sTyr), a negatively charged Tyr formed by Golgi-localized membrane-bound tyrosylprotein sulfotransferases during protein trafficking, were also found in the CDR regions and shown to play an important role in modulating antibody-antigen interaction. This breakthrough finding demonstrated that antibody repertoire could be further diversified through post-translational modifications, in addition to the conventional genetic recombination. This review article summarizes the current advances in the understanding of the Tyr-sulfation modification mechanism and its application in potentiating protein-protein interaction for antibody engineering and production. Challenges and opportunities are also discussed.
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3
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Lima MA, Rudd TR, Fernig DG, Yates EA. Phosphorylation and sulfation share a common biosynthetic pathway, but extend biochemical and evolutionary diversity of biological macromolecules in distinct ways. JOURNAL OF THE ROYAL SOCIETY, INTERFACE 2022; 19:20220391. [PMID: 35919982 PMCID: PMC9346353 DOI: 10.1098/rsif.2022.0391] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Phosphate and sulfate groups are integral to energy metabolism and introduce negative charges into biological macromolecules. One purpose of such modifications is to elicit precise binding/activation of protein partners. The physico-chemical properties of the two groups, while superficially similar, differ in one important respect—the valency of the central (phosphorus or sulfur) atom. This dictates the distinct properties of their respective esters, di-esters and hence their charges, interactions with metal ions and their solubility. These, in turn, determine the contrasting roles for which each group has evolved in biological systems. Biosynthetic links exist between the two modifications; the sulfate donor 3′-phosphoadenosine-5′-phosphosulfate being formed from adenosine triphosphate (ATP) and adenosine phosphosulfate, while the latter is generated from sulfate anions and ATP. Furthermore, phosphorylation, by a xylosyl kinase (Fam20B, glycosaminoglycan xylosylkinase) of the xylose residue of the tetrasaccharide linker region that connects nascent glycosaminoglycan (GAG) chains to their parent proteoglycans, substantially accelerates their biosynthesis. Following observations that GAG chains can enter the cell nucleus, it is hypothesized that sulfated GAGs could influence events in the nucleus, which would complete a feedback loop uniting the complementary anionic modifications of phosphorylation and sulfation through complex, inter-connected signalling networks and warrants further exploration.
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Affiliation(s)
- M A Lima
- Centre for Glycosciences, Keele University, Keele ST5 5BG, UK.,School of Life Sciences, Keele University, Keele ST5 5BG, UK
| | - T R Rudd
- Analytical and Biological Science Department, National Institute of Biological Standards and Control (NIBSC), Blanche Lane, South Mimms, Potters Bar EN6 3QG, UK.,Department of Biochemistry and Systems Biology, ISMIB, University of Liverpool, Liverpool L69 7ZB, UK
| | - D G Fernig
- Department of Biochemistry and Systems Biology, ISMIB, University of Liverpool, Liverpool L69 7ZB, UK
| | - E A Yates
- School of Life Sciences, Keele University, Keele ST5 5BG, UK.,Department of Biochemistry and Systems Biology, ISMIB, University of Liverpool, Liverpool L69 7ZB, UK
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4
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Stewart V, Ronald PC. Sulfotyrosine residues: interaction specificity determinants for extracellular protein-protein interactions. J Biol Chem 2022; 298:102232. [PMID: 35798140 PMCID: PMC9372746 DOI: 10.1016/j.jbc.2022.102232] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2021] [Revised: 06/21/2022] [Accepted: 06/22/2022] [Indexed: 11/28/2022] Open
Abstract
Tyrosine sulfation, a post-translational modification, can determine and often enhance protein–protein interaction specificity. Sulfotyrosyl residues (sTyrs) are formed by the enzyme tyrosyl-protein sulfotransferase during protein maturation in the Golgi apparatus and most often occur singly or as a cluster within a six-residue span. With both negative charge and aromatic character, sTyr facilitates numerous atomic contacts as visualized in binding interface structural models, thus there is no discernible binding site consensus. Found exclusively in secreted proteins, in this review, we discuss the four broad sequence contexts in which sTyr has been observed: first, a solitary sTyr has been shown to be critical for diverse high-affinity interactions, such as between peptide hormones and their receptors, in both plants and animals. Second, sTyr clusters within structurally flexible anionic segments are essential for a variety of cellular processes, including coreceptor binding to the HIV-1 envelope spike protein during virus entry, chemokine interactions with receptors, and leukocyte rolling cell adhesion. Third, a subcategory of sTyr clusters is found in conserved acidic sequences termed hirudin-like motifs that enable proteins to interact with thrombin; consequently, many proven and potential therapeutic proteins derived from blood-consuming invertebrates depend on sTyrs for their activity. Finally, several proteins that interact with collagen or similar proteins contain one or more sTyrs within an acidic residue array. Refined methods to direct sTyr incorporation in peptides synthesized both in vitro and in vivo, together with continued advances in mass spectrometry and affinity detection, promise to accelerate discoveries of sTyr occurrence and function.
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Affiliation(s)
- Valley Stewart
- Department of Microbiology & Molecular Genetics, University of California, Davis, USA.
| | - Pamela C Ronald
- Department of Plant Pathology, University of California, Davis, USA; Genome Center, University of California, Davis, USA.
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5
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Gao J, Wang C, Han DW, Shin DM. Single-ion conducting polymer electrolytes as a key jigsaw piece for next-generation battery applications. Chem Sci 2021; 12:13248-13272. [PMID: 34777744 PMCID: PMC8528010 DOI: 10.1039/d1sc04023e] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2021] [Accepted: 08/31/2021] [Indexed: 12/04/2022] Open
Abstract
As lithium-ion batteries have been the state-of-the-art electrochemical energy storage technology, the overwhelming demand for energy storage on a larger scale has triggered the development of next-generation battery technologies possessing high energy density, longer cycle lives, and enhanced safety. However, commercial liquid electrolytes have been plagued by safety issues due to their flammability and instability in contact with electrodes. Efforts have focused on developing such electrolytes by covalently immobilizing anionic groups onto a polymer backbone, which only allows Li+ cations to be mobile through the polymer matrix. Such ion-selective polymers provide many advantages over binary ionic conductors in battery operation, such as minimization of cell polarization and dendrite growth. In this review, the design, synthesis, fabrication, and class are reviewed to give insight into the physicochemical properties of single-ion conducting polymer electrolytes. The standard characterization method and remarkable electrochemical properties are further highlighted, and perspectives on current challenges and future directions are also discussed.
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Affiliation(s)
- Jingyi Gao
- Department of Mechanical Engineering, The University of Hong Kong Pokfulam 999077 Hong Kong China
| | - Cong Wang
- Department of Mechanical Engineering, The University of Hong Kong Pokfulam 999077 Hong Kong China
| | - Dong-Wook Han
- Department of Cogno-Mechatronics Engineering, Pusan National University Busan 46241 Republic of Korea
| | - Dong-Myeong Shin
- Department of Mechanical Engineering, The University of Hong Kong Pokfulam 999077 Hong Kong China
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6
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Kochert M, Nocek BP, Habeeb Mohammad TS, Gild E, Lovato K, Heath TK, Holz RC, Olsen KW, Becker DP. Atomic-Resolution 1.3 Å Crystal Structure, Inhibition by Sulfate, and Molecular Dynamics of the Bacterial Enzyme DapE. Biochemistry 2021; 60:908-917. [PMID: 33721990 DOI: 10.1021/acs.biochem.0c00926] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We report the atomic-resolution (1.3 Å) X-ray crystal structure of an open conformation of the dapE-encoded N-succinyl-l,l-diaminopimelic acid desuccinylase (DapE, EC 3.5.1.18) from Neisseria meningitidis. This structure [Protein Data Bank (PDB) entry 5UEJ] contains two bound sulfate ions in the active site that mimic the binding of the terminal carboxylates of the N-succinyl-l,l-diaminopimelic acid (l,l-SDAP) substrate. We demonstrated inhibition of DapE by sulfate (IC50 = 13.8 ± 2.8 mM). Comparison with other DapE structures in the PDB demonstrates the flexibility of the interdomain connections of this protein. This high-resolution structure was then utilized as the starting point for targeted molecular dynamics experiments revealing the conformational change from the open form to the closed form that occurs when DapE binds l,l-SDAP and cleaves the amide bond. These simulations demonstrated closure from the open to the closed conformation, the change in RMS throughout the closure, and the independence in the movement of the two DapE subunits. This conformational change occurred in two phases with the catalytic domains moving toward the dimerization domains first, followed by a rotation of catalytic domains relative to the dimerization domains. Although there were no targeting forces, the substrate moved closer to the active site and bound more tightly during the closure event.
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Affiliation(s)
- Matthew Kochert
- Department of Chemistry and Biochemistry, Loyola University Chicago, 1032 West Sheridan Road, Chicago, Illinois 60660, United States
| | - Boguslaw P Nocek
- The Center for Structural Genomics of Infectious Diseases, Computation Institute, The University of Chicago, Chicago, Illinois 60637, United States
| | - Thahani S Habeeb Mohammad
- Department of Chemistry and Biochemistry, Loyola University Chicago, 1032 West Sheridan Road, Chicago, Illinois 60660, United States
| | - Elliot Gild
- Department of Chemistry and Biochemistry, Loyola University Chicago, 1032 West Sheridan Road, Chicago, Illinois 60660, United States
| | - Kaitlyn Lovato
- Department of Chemistry and Biochemistry, Loyola University Chicago, 1032 West Sheridan Road, Chicago, Illinois 60660, United States
| | - Tahirah K Heath
- Department of Chemistry and Biochemistry, Loyola University Chicago, 1032 West Sheridan Road, Chicago, Illinois 60660, United States
| | - Richard C Holz
- Department of Chemistry, Colorado School of Mines, 1500 Illinois Street, Golden, Colorado 80401, United States
| | - Kenneth W Olsen
- Department of Chemistry and Biochemistry, Loyola University Chicago, 1032 West Sheridan Road, Chicago, Illinois 60660, United States
| | - Daniel P Becker
- Department of Chemistry and Biochemistry, Loyola University Chicago, 1032 West Sheridan Road, Chicago, Illinois 60660, United States
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7
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Paulson CN, John K, Baxley RM, Kurniawan F, Orellana K, Francis R, Sobeck A, Eichman BF, Chazin WJ, Aihara H, Georg GI, Hawkinson JE, Bielinsky AK. The anti-parasitic agent suramin and several of its analogues are inhibitors of the DNA binding protein Mcm10. Open Biol 2019; 9:190117. [PMID: 31409229 PMCID: PMC6731595 DOI: 10.1098/rsob.190117] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
Minichromosome maintenance protein 10 (Mcm10) is essential for DNA unwinding by the replisome during S phase. It is emerging as a promising anti-cancer target as MCM10 expression correlates with tumour progression and poor clinical outcomes. Here we used a competition-based fluorescence polarization (FP) high-throughput screening (HTS) strategy to identify compounds that inhibit Mcm10 from binding to DNA. Of the five active compounds identified, only the anti-parasitic agent suramin exhibited a dose-dependent decrease in replication products in an in vitro replication assay. Structure–activity relationship evaluation identified several suramin analogues that inhibited ssDNA binding by the human Mcm10 internal domain and full-length Xenopus Mcm10, including analogues that are selective for Mcm10 over human RPA. Binding of suramin analogues to Mcm10 was confirmed by surface plasmon resonance (SPR). SPR and FP affinity determinations were highly correlated, with a similar rank between affinity and potency for killing colon cancer cells. Suramin analogue NF157 had the highest human Mcm10 binding affinity (FP Ki 170 nM, SPR KD 460 nM) and cell activity (IC50 38 µM). Suramin and its analogues are the first identified inhibitors of Mcm10 and probably block DNA binding by mimicking the DNA sugar phosphate backbone due to their extended, polysulfated anionic structures.
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Affiliation(s)
- Carolyn N Paulson
- Department of Medicinal Chemistry and Institute for Therapeutics Discovery & Development, College of Pharmacy, University of Minnesota, Minneapolis, MN 55414, USA
| | - Kristen John
- Department of Medicinal Chemistry and Institute for Therapeutics Discovery & Development, College of Pharmacy, University of Minnesota, Minneapolis, MN 55414, USA
| | - Ryan M Baxley
- Department of Biochemistry, Molecular Biology and Biophysics, College of Biological Sciences, University of Minnesota, Minneapolis, MN 55455, USA
| | - Fredy Kurniawan
- Department of Biochemistry, Molecular Biology and Biophysics, College of Biological Sciences, University of Minnesota, Minneapolis, MN 55455, USA
| | - Kayo Orellana
- Department of Biochemistry, Molecular Biology and Biophysics, College of Biological Sciences, University of Minnesota, Minneapolis, MN 55455, USA
| | - Rawle Francis
- Department of Medicinal Chemistry and Institute for Therapeutics Discovery & Development, College of Pharmacy, University of Minnesota, Minneapolis, MN 55414, USA
| | - Alexandra Sobeck
- Department of Biochemistry, Molecular Biology and Biophysics, College of Biological Sciences, University of Minnesota, Minneapolis, MN 55455, USA
| | - Brandt F Eichman
- Departments of Biological Sciences and Biochemistry, Center for Structural Biology, Vanderbilt University, Nashville, TN 37232, USA
| | - Walter J Chazin
- Departments of Biochemistry and Chemistry, Center for Structural Biology, Vanderbilt University, Nashville, TN 37240, USA
| | - Hideki Aihara
- Department of Biochemistry, Molecular Biology and Biophysics, College of Biological Sciences, University of Minnesota, Minneapolis, MN 55455, USA
| | - Gunda I Georg
- Department of Medicinal Chemistry and Institute for Therapeutics Discovery & Development, College of Pharmacy, University of Minnesota, Minneapolis, MN 55414, USA
| | - Jon E Hawkinson
- Department of Medicinal Chemistry and Institute for Therapeutics Discovery & Development, College of Pharmacy, University of Minnesota, Minneapolis, MN 55414, USA
| | - Anja-Katrin Bielinsky
- Department of Biochemistry, Molecular Biology and Biophysics, College of Biological Sciences, University of Minnesota, Minneapolis, MN 55455, USA
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8
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Abstract
The ability of polyvalent anions to influence protein-protein interactions and protein net charge was investigated through solubility and turbidity experiments, determination of osmotic second virial coefficients ( B22), and ζ-potential values for lysozyme solutions. B22 values showed that all anions reduce protein-protein repulsion between positively charged lysozyme molecules, and those anions with higher net valencies are more effective. The polyvalent anions pyrophosphate and tripolyphosphate were observed to induce protein reentrant condensation, which has been previously observed with negatively charged proteins in the presence of trivalent cations. Reentrant condensation is a phenomenon in which low concentrations of polyvalent ions induce protein precipitation, but further increasing polyvalent ion concentration causes the protein precipitate to resolubilize. Interestingly, citrate does not induce lysozyme reentrant condensation despite having a similar charge, size, and shape to pyrophosphate. We observe qualitative differences in protein behavior when compared against negatively charged proteins in solutions of trivalent cations. The polyphosphate ions induce a much stronger protein-protein attraction, which correlates with the occurrence of a liquid-gel transition that replaces the liquid-liquid transition observed with trivalent cations. The results indicate that solutions of polyphosphate ions provide a model system for exploring the link between the protein-phase diagram and model interaction potentials and also highlight the importance that ion-specific effects can have on protein solubility.
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Affiliation(s)
- Jordan W Bye
- School of Chemical Engineering and Analytical Science , The University of Manchester , Sackville Street , Manchester M13 9PL , U.K
| | - Robin A Curtis
- School of Chemical Engineering and Analytical Science , The University of Manchester , Sackville Street , Manchester M13 9PL , U.K
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9
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Angalakurthi SK, Tenorio CA, Blaber M, Middaugh CR. Investigating the dynamics and polyanion binding sites of fibroblast growth factor-1 using hydrogen-deuterium exchange mass spectrometry. Protein Sci 2018; 27:1068-1082. [PMID: 29645318 DOI: 10.1002/pro.3423] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2018] [Revised: 04/04/2018] [Accepted: 04/05/2018] [Indexed: 01/12/2023]
Abstract
In this study, we examined the local dynamics of acidic fibroblast growth factor (FGF-1) as well as the binding sites of various polyanions including poly-sulfates (heparin and low MW heparin) and poly-phosphates (phytic acid and ATP) using hydrogen-deuterium exchange mass spectrometry (HX-MS). For local dynamics, results are analyzed at the peptide level as well as in terms of buried amides employing crystallographic B-factors and compared with a residue level heat map generated from HX-MS results. Results show that strand 4 and 5 and the turn between them to be the most flexible regions as was previously seen by NMR. On the other hand, the C-terminal strands 8, 9, and 10 appear to be more rigid which is also consistent with crystallographic B-factors as well as local dynamics studies conducted by NMR. Crystal structures of FGF-1 in complex with heparin have shown that heparin binds to N-terminal Asn18 and to C-terminal Lys105, Tryp107, Lys112, Lys113, Arg119, Pro121, Arg122, Gln127, and Lys128 indicating electrostatic forces as dominant interactions. Heparin binding as determined by HX-MS is consistent with crystallography data. Previous studies have also shown that other polyanions including low MW heparin, phytic acid and ATP dramatically increase the thermal stability of FGF-1. Using HX-MS, we find other poly anions tested bind in a similar manner to heparin, primarily targeting the turns in the lysine rich C-terminal region of FGF-1 along with two distinct N-terminal regions that contains lysines and arginines/histidines. This confirms the interactions between FGF-1 and polyanions are primary directed by electrostatics.
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Affiliation(s)
- Siva K Angalakurthi
- Department of Pharmaceutical chemistry, University of Kansas, Lawrence, KS, 66047
| | - Connie A Tenorio
- Department of Biomedical Sciences, Florida State University, Tallahassee, FL, 32306-4300
| | - Michael Blaber
- Department of Biomedical Sciences, Florida State University, Tallahassee, FL, 32306-4300.,Program in Molecular Biophysics, Florida State University, Tallahassee, FL, 32306-4380
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10
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Barhoumi A, Mhiri T, Dammak T, Suñol JJ, Belhouchet M. Structural characterization, vibrational study, NLO and DFT calculations of a novel organic sulfate monohydrate templated with (S)-(-)-2,6-diammonium-4,5,6,7-tetrahydrobenzothiazole. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2016.09.008] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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11
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Ju T, Niu W, Cerny R, Bollman J, Roy A, Guo J. Molecular recognition of sulfotyrosine and phosphotyrosine by the Src homology 2 domain. MOLECULAR BIOSYSTEMS 2013; 9:1829-32. [DOI: 10.1039/c3mb70061e] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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12
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Butler SJ, Parker D. Anion binding in water at lanthanide centres: from structure and selectivity to signalling and sensing. Chem Soc Rev 2013; 42:1652-66. [DOI: 10.1039/c2cs35144g] [Citation(s) in RCA: 269] [Impact Index Per Article: 24.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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13
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Zhang L, Zhang J. Specific Ion–Protein Interactions Dictate Solubility Behavior of a Monoclonal Antibody at Low Salt Concentrations. Mol Pharm 2012; 9:2582-90. [DOI: 10.1021/mp300183a] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Le Zhang
- Department of Analytical
and Formulation Sciences,
Amgen Inc., One Amgen Center Drive, Thousand Oaks, California 91320-1799,
United States
| | - Jifeng Zhang
- Department of Analytical
and Formulation Sciences,
Amgen Inc., One Amgen Center Drive, Thousand Oaks, California 91320-1799,
United States
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Kang SO, Jeon S, Nam KC. Anion Recognition by Urea Derivatives of Anthraquinone: Dihydrogen Phosphate Ion Selective Neutral Receptors. Supramol Chem 2010. [DOI: 10.1080/1061027021000002260] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Affiliation(s)
- Sung Ok Kang
- a Department of Chemistry and the Institute of Basic Science , Chonnam National University , Kwangju, 500-757, South Korea
| | - Seungwon Jeon
- a Department of Chemistry and the Institute of Basic Science , Chonnam National University , Kwangju, 500-757, South Korea
| | - Kye Chun Nam
- a Department of Chemistry and the Institute of Basic Science , Chonnam National University , Kwangju, 500-757, South Korea
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15
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Scheerder J, Engbersen JFJ, Reinhoudt DN. Synthetic receptors for anion complexation. ACTA ACUST UNITED AC 2010. [DOI: 10.1002/recl.19961150602] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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16
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Pomecko R, Asfari Z, Hubscher-Bruder V, Bochenska M, Arnaud-Neu F. Anion recognition by phosphonium calix[4]arenes: synthesis and physico-chemical studies. Supramol Chem 2010. [DOI: 10.1080/10610270903437051] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Radoslaw Pomecko
- a IPHC-DSA, ULP, CNRS, ECPM , 25 rue Becquerel, 67087, Strasbourg Cedex 2, France
- b Department of Chemical Technology , Chemical Faculty, Gdansk University of Technology , ul. Narutowicza 11/12, 80-264, Gdansk, Poland
| | - Zouhair Asfari
- a IPHC-DSA, ULP, CNRS, ECPM , 25 rue Becquerel, 67087, Strasbourg Cedex 2, France
| | | | - Maria Bochenska
- b Department of Chemical Technology , Chemical Faculty, Gdansk University of Technology , ul. Narutowicza 11/12, 80-264, Gdansk, Poland
| | - Françoise Arnaud-Neu
- a IPHC-DSA, ULP, CNRS, ECPM , 25 rue Becquerel, 67087, Strasbourg Cedex 2, France
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17
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Kilah NL, Beer PD. Pyridine and Pyridinium-Based Anion Receptors. TOPICS IN HETEROCYCLIC CHEMISTRY 2010. [DOI: 10.1007/7081_2010_33] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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18
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Anion interactions of cytosine nucleobase and its nucleosides: Detailed view from DFT study. ACTA ACUST UNITED AC 2009. [DOI: 10.1016/j.theochem.2009.08.008] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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19
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Crouzier T, Picart C. Ion Pairing and Hydration in Polyelectrolyte Multilayer Films Containing Polysaccharides. Biomacromolecules 2009; 10:433-42. [DOI: 10.1021/bm8012378] [Citation(s) in RCA: 125] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Thomas Crouzier
- Université de Montpellier 2, CNRS UMR 5539, Place Eugène Bataillon, 34095 Montpellier Cedex 5, France
| | - Catherine Picart
- Université de Montpellier 2, CNRS UMR 5539, Place Eugène Bataillon, 34095 Montpellier Cedex 5, France
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20
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Chmielewski MJ, Davis JJ, Beer PD. Interlocked hostrotaxane and catenane structures for sensing charged guest species via optical and electrochemical methodologies. Org Biomol Chem 2009; 7:415-24. [DOI: 10.1039/b818351a] [Citation(s) in RCA: 108] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Delépine AS, Tripier R, Handel H. Cyclen-based bismacrocycles for biological anion recognition. A potentiometric and NMR study of AMP, ADP and ATP nucleotide complexation. Org Biomol Chem 2008; 6:1743-50. [PMID: 18452008 DOI: 10.1039/b719514a] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The behaviour of two cyclen-based bismacrocycles linked by aromatic spacers as receptors of adenosine monophosphate (AMP), adenosine diphosphate (ADP) and adenosine triphosphate (ATP) anions is explored. The two bismacrocycles differ from one another by the nature of their spacers, which are respectively 1,3-dimethylbenzene (BMC), or 2,6-dimethylpyridine (BPyC). Potentiometric investigations supported by (1)H and (31)P NMR measurements were performed over a wide pH range to characterize and understand the driving forces implicated in the supramolecular assemblies. A comparison is also carried out with the results presented in this work and those obtained previously with these two ligands and inorganic phosphates. The comparison exhibits the importance of pi-stacking capability of the organic anions in the binding and hydrogen-bonding network. For BPyC, NMR studies highlight two coordination schemes depending on the protonation of the nitrogen atom of the pyridinyl spacer, which acts in acidic media as a supplementary anchoring point.
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Affiliation(s)
- Anne-Sophie Delépine
- UMR CNRS 6521, Chimie, Electrochimie Moléculaire et Analytique, Université de Bretagne Occidentale, C. S. 93837, 6 avenue Victor Le Gorgeu, 29238, Brest, Cedex 3, France
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22
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Stiffin RM, Sullivan SM, Carlson GM, Holyoak T. Differential inhibition of cytosolic PEPCK by substrate analogues. Kinetic and structural characterization of inhibitor recognition. Biochemistry 2008; 47:2099-109. [PMID: 18197707 DOI: 10.1021/bi7020662] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The mechanisms of molecular recognition of phosphoenolpyruvate (PEP) and oxaloacetate (OAA) by cytosolic phosphoenolpyruvate carboxykinase (cPEPCK) were investigated by the systematic evaluation of a variety of PEP and OAA analogues as potential reversible inhibitors of the enzyme against PEP. The molecules that inhibit the enzyme in a competitive fashion were found to fall into two general classes. Those molecules that mimic the binding geometry of PEP, namely phosphoglycolate and 3-phosphonopropionate, are found to bind weakly (millimolar Ki values). In contrast, those competitive inhibitors that mimic the binding of OAA (oxalate and phosphonoformate) coordinate directly to the active site manganese ion and bind an order of magnitude more tightly (micromolar Ki values). The competitive inhibitor sulfoacetate is found to be an outlier of these two classes, binding in a hybrid fashion utilizing modes of recognition of both PEP and OAA in order to achieve a micromolar inhibition constant in the absence of direct coordination to the active site metal. The kinetic studies in combination with the structural characterization of the five aforementioned competitive inhibitors demonstrate the molecular requirements for high affinity binding of molecules to the active site of the enzyme. These features include cis-planar carbonyl groups that are required for coordination to the active site metal, a bridging electron rich atom at the position corresponding to the C2 methylene group of OAA to facilitate interactions with R405, a carboxylate or sulfonate moiety at a position corresponding to the C1 carboxylate of OAA, and the edge-on aromatic interaction between a carboxylate and Y235.
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Affiliation(s)
- Rose Mary Stiffin
- Department of Molecular Biosciences, The University of Tennessee Health Science Center, Memphis, Tennessee 38163, USA
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Macchiarulo A, Pellicciari R. Exploring the other side of biologically relevant chemical space: Insights into carboxylic, sulfonic and phosphonic acid bioisosteric relationships. J Mol Graph Model 2007; 26:728-39. [PMID: 17544772 DOI: 10.1016/j.jmgm.2007.04.010] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2006] [Revised: 03/27/2007] [Accepted: 04/28/2007] [Indexed: 10/23/2022]
Abstract
Bioisosteric replacements have been widely and successfully applied to develop bioisosteric series of biologically active compounds in medicinal chemistry. In this work, the concept of bioisosterism is revisited using a novel approach based on charting the "other side" of biologically relevant chemical space. This space is composed by the ensemble of binding sites of protein structures. Explorations into the "other side" of biologically relevant chemical space are exploited to gain insight into the principles that rules molecular recognition and bioisosteric relationships of molecular fragments. We focused, in particular, on the construction of the "other side" of chemical space covered by binding sites of small molecules containing carboxylic, sulfonic, and phosphonic acidic groups. The analysis of differences in the occupation of that space by distinct types of binding sites unveils how evolution has worked in assessing principles that rule the selectivity of molecular recognition, and improves our knowledge on the molecular basis of bioisosteric relationships among carboxylic, sulfonic, and phosphonic acidic groups.
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Affiliation(s)
- Antonio Macchiarulo
- Dipartimento di Chimica e Tecnologia del Farmaco, Università di Perugia, via del Liceo 1, 06123 Perugia, Italy
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25
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Pellicciari R, Marinozzi M, Macchiarulo A, Fulco MC, Gafarova J, Serpi M, Giorgi G, Nielsen S, Thomsen C. Synthesis, Molecular Modeling Studies, and Preliminary Pharmacological Characterization of All Possible 2-(2‘-Sulfonocyclopropyl)glycine Stereoisomers as Conformationally Constrained L-Homocysteic Acid Analogs. J Med Chem 2007; 50:4630-41. [PMID: 17725337 DOI: 10.1021/jm070322e] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Bioisosteric replacements of the distal acidic group of L-glutamic acid (L-Glu, 1) and conformational constraining of its carbon skeleton, have been widely exploited to discover competitive modulators of glutamate receptors. Noteworthy, L-homocysteic acid (L-HCA, 18), a neurotransmitter belonging to the class of excitatory sulfur-containing amino acids, may be considered an endogenous occurring bioisoster of L-Glu (1). L-HCA (18) has been reported to mediate signaling between glial cells and postsynaptic neurons through the activation of glutamate receptors and others hitherto not well-characterized receptors. As a continuation of our work in the preparation of conformationally constrained glutamate analogs, we report the synthesis and the preliminary pharmacological characterization at iGluRs and mGluRs of all eight stereoisomers of 2-(2'-sulfonocyclopropyl)glycine (SCGs, 8-15). Among the reported compounds, S-SCG-4 (15) showed to be a potent and relatively selective AMPA ligand. Docking experiments coupled to molecular electrostatic potential calculations allowed insight into the molecular basis of the activity of this compound to be gained. The library of SCGs (8-15), while providing a novel source of modulators of the glutamate receptors, represents a valuable chemical tool to better characterize L-HCA pathways in the CNS.
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Affiliation(s)
- Roberto Pellicciari
- Dipartimento di Chimica e Tecnologia del Farmaco, Università di Perugia, Via del Liceo, 1- 06123 Perugia, Italy.
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26
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Remko M, Van Duijnen PT, von der Lieth CW. Structure and stability of Li(I) and Na(I) – Carboxylate, sulfate and phosphate complexes. ACTA ACUST UNITED AC 2007. [DOI: 10.1016/j.theochem.2007.03.004] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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27
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Guo W, Wang J, He J, Li Z, Cheng JP. Polymethylene-bridged Cystine–Glycine-containing Cyclopeptides as Hydrogen-bonding Electroneutral Anion Receptors: Design, Synthesis, and Halide Ion Recognition. Supramol Chem 2007. [DOI: 10.1080/10610270310001632395] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- Wei Guo
- b Department of Chemistry , Shanxi University , 030006, Taiyuan, China
| | - Jing Wang
- a Department of Chemistry and State Key Laboratory of Elemento-Organic Chemistry , Nankai University , 300071, Tianjin, China
| | - JiaQi He
- a Department of Chemistry and State Key Laboratory of Elemento-Organic Chemistry , Nankai University , 300071, Tianjin, China
| | - ZuCheng Li
- a Department of Chemistry and State Key Laboratory of Elemento-Organic Chemistry , Nankai University , 300071, Tianjin, China
| | - Jin-Pei Cheng
- a Department of Chemistry and State Key Laboratory of Elemento-Organic Chemistry , Nankai University , 300071, Tianjin, China
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28
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Develay S, Tripier R, Bernier N, Le Baccon M, Patinec V, Serratrice G, Handel H. Complexation of the triphosphate anion: tuning the structure of cyclen based macrotricycles with 1,3-dimethylbenzene and 2,6-dimethylpyridine linkers. A potentiometric and NMR study. Dalton Trans 2007:1038-46. [PMID: 17325779 DOI: 10.1039/b616862k] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The host-guest interaction between orthophosphate, pyrophosphate and triphosphate anions and three cyclen-based macrotricyclic ligands was investigated by potentiometric measurements and NMR spectroscopy. The ligands differ from one another by the nature of their spacers, which are 1,3-dimethylbenzene (TMC), 2,6-dimethylpyridine (TPyC) or a combination of the two (TMPyC). In aqueous solution, each ligand gave protonated species that further formed ternary complexes after binding with anions; these complexes were analyzed as a result of hydrogen bond formation and coulombic attraction between the organic host and the inorganic guest. The equilibrium constants found for all the detected species are reported and the selectivity, illustrated with species distribution diagrams, is discussed. The results unambiguously showed that the ligand possessing a single supplementary anchoring site (the pyridinyl spacer) exhibited the greatest affinity for the phosphate species in a large p[H] range.
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Affiliation(s)
- Stéphanie Develay
- UMR CNRS 6521, Chimie Electrochimie Moléculaire et Analytique, Université de Bretagne Occidentale, C. S. 93837, 29238, Brest Cedex 3, France
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29
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A modular approach to organic, coordination complex and polymer based podand hosts for anions. Coord Chem Rev 2006. [DOI: 10.1016/j.ccr.2006.06.004] [Citation(s) in RCA: 120] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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30
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Casnati A, Pirondini L, Pelizzi N, Ungaro R. New TetrafunctionalizedConeCalix[4]arenes as Neutral Hosts for Anion Recognition. Supramol Chem 2006. [DOI: 10.1080/10610270008029804] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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31
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Barker JE, Liu Y, Yee GT, Chen WZ, Wang G, Rivera VM, Ren T. Cu2{[18]ane-N6} Complexes: Structures, Magnetism, and Phosphate Monoester Binding. Inorg Chem 2006; 45:7973-80. [PMID: 16961393 DOI: 10.1021/ic0611140] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
A novel Cu(II)2 complex of the [18]ane-N6 macrocycle ([18]ane-N6 = 1,4,7,10,13,16-hexaazacyclooctadecane) was prepared from the reaction between [18]ane-N6 and Cu(II) salts such as Cu(NO3)2 and Cu(OAc)2. A structural study of the complex derived from Cu(OAc)2 (1) revealed a Cu(II)2 core encircled by a [18]ane-N6 ligand and two mu-O-OAc ligands. The facile replacement of mu-O-OAc by a phosphate monoester [PO3(OR)2-] yielded a number of bis(phosphate monoester)dicopper complexes with ROPO3(2-) as hydrogen phosphate (HPO4(2-), 3a), phenyl phosphate [PO3(OPh)2-, 3b], glycerol 2-phosphate [PO3(OCH(CH2OH)2)2-, 3c], alpha-d-gluocose phosphate [PO3(C6H11O6)2-, 3d], and dl-alpha-glycerol phosphate [PO3(OCH2CHOHCH2OH)2-, 3e]. Structural studies of compounds 3a-d confirmed both the retention of the Cu2{[18]ane-N6} core and a mu-O-PO3(OR) coordination mode. Displacement of acetate by a phosphate monoester in an aqueous solution was accompanied by a significant change in the visible absorption, which enables the establishment of relative association constants of PO3(OR)2- on the order of 10(4) in the unbuffered solution and 10(3) in the buffered solution (HEPES). Measurement of the magnetic susceptibility of compound 3a over the temperature range of 5-300 K and subsequent modeling revealed a weak antiferromagnetic coupling (J = -1.1 cm(-1)) between two Cu(II) centers.
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Affiliation(s)
- Julia E Barker
- Department of Chemistry, University of Miami, Coral Gables, Florida 33124, USA
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32
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Anda C, Angeles Martínez M, Llobet A. A Systematic Evaluation of Molecular Recognition Phenomena. Part 5. Selective Binding of Tripolyphosphate and ATP to Isomeric Hexaazamacrocyclic Ligands Containing Xylylic Spacers. Supramol Chem 2006. [DOI: 10.1080/10610270412331337330] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- Carmen Anda
- a Departament de Química , Universitat de Girona , Campus de Montilivi, 17071, Girona, Spain
| | - Ma Angeles Martínez
- a Departament de Química , Universitat de Girona , Campus de Montilivi, 17071, Girona, Spain
| | - Antoni Llobet
- b Departament de Química , Universitat Autònama de Barcelona , Bellaterra, E-08193, Barcelona, Spain
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33
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Galbraith SG, Tasker PA. Review: The Design of Ligands for the Transport of Metal Salts in Extractive Metallurgy. Supramol Chem 2006. [DOI: 10.1080/10610270500062609] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- Stuart G. Galbraith
- a Department of Chemistry , The University of Edinburgh , Joseph Black Building, Kings Buildings, West Mains Road, Edinburgh, EH9 3JJ, UK
| | - Peter A. Tasker
- a Department of Chemistry , The University of Edinburgh , Joseph Black Building, Kings Buildings, West Mains Road, Edinburgh, EH9 3JJ, UK
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34
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Develay S, Tripier R, Le Baccon M, Patinec V, Serratrice G, Handel H. Host–guest interaction between cyclen based macrotricyclic ligands and phosphate anions. A potentiometric investigation. Dalton Trans 2006:3418-26. [PMID: 16832490 DOI: 10.1039/b517695f] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The host-guest interaction between orthophosphate, pyrophosphate and triphosphate anions and three cyclen based macrotricyclic ligands possessing ortho- (TOC), meta- (TMC) and para-xylenyl (TPC) linkers was investigated by potentiometric measurements. The ternary species present in solution and their stability constants have been determined. The different behaviours are explained in terms of hydrogen bond formation and coulombic attraction between the organic host and the inorganic guest. The selectivity, illustrated with species distribution diagrams, is discussed. The results unambiguously showed the importance of the distance between the two cyclen cores and emphasized the increasing of the triphosphate species selectivity together with the cavity size of the ligand. A comparison of the present results with those obtained with their mono-bridged homologues is also discussed.
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Affiliation(s)
- Stéphanie Develay
- UMR CNRS 6521, "Chimie, Electrochimie Moléculaire et Analytique", Université de Bretagne Occidentale, C. S. 93837, 6 avenue Victor Le Gorgeu, 29238, Brest Cedex 3, France
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35
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Schug KA, Lindner W. Noncovalent binding between guanidinium and anionic groups: focus on biological- and synthetic-based arginine/guanidinium interactions with phosph[on]ate and sulf[on]ate residues. Chem Rev 2005; 105:67-114. [PMID: 15720152 DOI: 10.1021/cr040603j] [Citation(s) in RCA: 459] [Impact Index Per Article: 24.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Kevin A Schug
- University of Vienna, Department of Analytical Chemistry, Währingerstrasse 38, A-1090 Vienna, Austria.
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36
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Develay S, Tripier R, Le Baccon M, Patinec V, Serratrice G, Handel H. Cyclen based bis-macrocyclic ligands as phosphates receptors. A potentiometric and NMR study. Dalton Trans 2005:3016-24. [PMID: 16127495 DOI: 10.1039/b507819a] [Citation(s) in RCA: 35] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The host-guest interaction between orthophosphate, pyrophosphate and triphosphate anions and four cyclen based bis-macrocycles ligands possessing ortho-(BOC), meta-(BMC), para-xylenyl (BPC) or 2,6-pyridinyl (BPyC) linker was investigated by potentiometric measurements and NMR spectroscopy. Each ligand gave protonated species in aqueous solution that further formed ternary complexes after binding with anions; these complexes were analyzed as a result of hydrogen bond formation and Coulombic attraction between the organic host and the inorganic guest. The equilibrium constants for all the detected species are reported and the selectivity, illustrated with species distribution diagrams, is discussed. The results unambiguously showed the importance of the distance between the two cyclen cores and underlined, especially for the triphosphate species, the contribution of the nitrogen atom of the pyridinyl spacer as a supplementary anchoring point in acidic medium.
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Affiliation(s)
- Stéphanie Develay
- UMR CNRS 6521, Chimie, Electrochimie Moléculaire et Analytique, Université de Bretagne Occidentale, C. S. 93837, 6 avenue Victor Le Gorgeu, 29238 Brest Cedex 3, France
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37
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Sharma RP, Bala R, Sharma R, Venugopalan P. Second-sphere coordination complex via hydrogen bonding: synthesis, characterization and X-ray crystal structure of hexaamminecobalt(III)chloride dimethanesulphonate, [Co(NH3)6]Cl(CH3SO3)2. J Mol Struct 2004. [DOI: 10.1016/j.molstruc.2004.03.040] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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38
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Anda C, Llobet A, Martell AE, Donnadieu B, Parella T. Systematic Evaluation of Molecular Recognition Phenomena. 3. Selective Diphosphate Binding to Isomeric Hexaazamacrocyclic Ligands Containing Xylylic Spacers. Inorg Chem 2003; 42:8545-50. [PMID: 14658911 DOI: 10.1021/ic034205v] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The crystal structure of 3,7,11,18,22,26-hexaazatricyclo[26.2.2.2(13,16)]tetratriaconta-1(31),13(34),14,16(33),28(32),29-hexaene hexahydrobromide salt [(H6P3)Br6] has been determined by means of X-ray diffraction analysis. It crystallizes with an additional molecule of ethanol and half a molecule of water per molecule of the hydrobromide P3 ligand. The protonation constants of P3 and its host-guest interactions with monophospate (Ph) and pyrophosphate (Pp) have been investigated by potentiometric equilibrium methods. Ternary complexes are formed in aqueous solution as a result of hydrogen bond formation and Coulombic interactions between the host and the guest; formation constants for all the species obtained are reported and compared with the isomeric 3,7,11,19,23,27-hexaazatricyclo[27.3.1.1(13,17)]tetratriaconta-1(33),13, 15,17(34),29,31-hexaene (Bn) ligand. For the H6P3Pp(2+) those bonding interactions reach a maximum yielding a log KR6 of 5.87. The selectivity of the P3 ligand with regard to the monophosphate and pyrophosphate substrates (S) is discussed and illustrated with global species distribution diagrams showing a strong preference for the latter over the former as a consequence of the much stronger formation constants with pyrophosphate. An analysis of the isomeric effect is also carried out by comparing the P3-S versus Bn-S systems. In the best case, a selectivity of over 88% is achieved for the diphosphate complexation when using the meta isomer over the para, due solely to the size and shape of the receptors cavity.
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Affiliation(s)
- Carmen Anda
- Departament de Química, Universitat de Girona, Campus de Montilivi 17071, Girona, Spain
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39
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Barker JE, Liu Y, Martin ND, Ren T. Dicopper-[18]ane-N6 Complex as the Platform for Phosphate Monoester Binding. J Am Chem Soc 2003; 125:13332-3. [PMID: 14583009 DOI: 10.1021/ja036407w] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Dicopper-[18]ane-N6 complex functions as a broad spectrum receptor for phosphate monoesters.
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Affiliation(s)
- Julia E Barker
- Department of Chemistry and Center for Supramolecular Science, University of Miami, Coral Gables, Florida 33124, USA
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40
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Cochran S, Li C, Fairweather JK, Kett WC, Coombe DR, Ferro V. Probing the Interactions of Phosphosulfomannans with Angiogenic Growth Factors by Surface Plasmon Resonance. J Med Chem 2003; 46:4601-8. [PMID: 14521421 DOI: 10.1021/jm030180y] [Citation(s) in RCA: 68] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The binding interactions of the phosphosulfomannan anticancer agent PI-88 (1) with the angiogenic growth factors FGF-1, FGF-2, and VEGF were studied by surface plasmon resonance (SPR) on a BIAcore 3000 biosensor. Compared with heparin, PI-88 has at least 11-fold higher affinity for FGF-1 and at least 3-fold higher affinity for VEGF, but at least 13-fold lower affinity for FGF-2. To define the structural features of PI-88 that are important for growth factor binding, several analogues, such as dephosphorylated PI-88 and a sulfated pentasaccharide, were prepared. The binding interactions of these analogues with FGF-1, FGF-2, and VEGF were similarly studied by SPR, and structure-activity relationships were determined.
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Affiliation(s)
- Siska Cochran
- Drug Design Group, Progen Industries Limited, Brisbane, Richlands BC, Queensland 4077, Australia
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41
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42
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Onoda A, Yamada Y, Doi M, Okamura T, Ueyama N. Dinuclear calcium complex with weakly NH...O hydrogen-bonded sulfonate ligands. Inorg Chem 2001; 40:516-21. [PMID: 11209609 DOI: 10.1021/ic0003067] [Citation(s) in RCA: 54] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The novel intramolecularly NH...O hydrogen-bonded Ca(II)-aryl sulfonate complex, [Ca2(SO3-2-t-BuCONHC6H4)2(H2O)4]n(2-t-BuCONHC6H4SO3)2n (1), sulfonate anion, (HNEt3)(SO3-2-t-BuCONHC6H4) (2a), (PPh4)(SO3-2-t-BuCONHC6H4) (2b), (n-Bu4N)(SO3-2-t-BuCONHC6H4) (2c), and sulfonic acid, 2-t-BuCONHC6H4SO3H (3), were synthesized. The structures of 1, 2a, and 2b depict the presence of the formation of NH...O hydrogen bonds between the amide NH and S-O oxygen for a series of compounds as determined by IR and 1H NMR analyses both in the solid state and in the solution state. Thus, the NH...O hydrogen bonds with neutral amide groups are available for investigation of the electronic state of the O- anion. The combined data from the IR and 1H NMR spectra indicate that the sulfonic acid, sulfonate anion, and Ca(II) complex have a substantially weak intramolecular NH...O hydrogen bond between the SO3 oxygen and amide NH. In the detailed comparison with the intense NH...O hydrogen bonds for the carboxylate, weak NH...O hydrogen bonds for sulfonate is due to the strong conjugation of the SO3- group with the lower nucleophilicity.
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Affiliation(s)
- A Onoda
- Department of Macromolecular Science, Graduate School of Science, Osaka University, Toyonaka, Osaka 560-0043, Japan
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43
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Abstract
Although inorganic sulfate is an essential and ubiquitous anion in human biology, it is infrequently assayed in clinical chemistry today. Serum sulfate is difficult to measure accurately without resorting to physicochemical methods, such as ion chromatography, although many other techniques have been described. It is strongly influenced by a variety of physiological factors, including age, diet, pregnancy, and drug ingestion. Urinary excretion is the principal mechanism of disposal for the excess sulfate produced by sulfur amino acid oxidation, and the kidney is the primary site of regulation. In renal failure, sulfoesters accumulate and hypersulfatemia contributes directly to the unmeasured anion gap characteristic of the condition. In contrast, sulfate in urine is readily assayed by a number of means, particularly nephelometry after precipitation as a barium salt. Sulfate is most commonly assayed today as part of the clinical workup for nephrolithiasis, because sulfate is a major contributor to the ionic strength of urine and alters the equilibrium constants governing saturation and precipitation of calcium salts. Total sulfate deficiency has hitherto not been described, although genetic defects in sulfate transporters have been associated recently with congenital osteochondrodystrophies that may be lethal. New insights into sulfate transport and its hormonal regulation may lead to new clinical applications of sulfate analysis in the future.
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Affiliation(s)
- D E Cole
- Department of Laboratory Medicine and Pathobiology, University of Toronto, ON.
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44
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Anda C, Llobet A, Salvado V, Reibenspies J, Motekaitis RJ, Martell AE. A systematic evaluation of molecular recognition phenomena. 1. Interaction between phosphates and nucleotides with hexaazamacrocyclic ligands containing m-xylylic spacers. Inorg Chem 2000; 39:2986-99. [PMID: 11196893 DOI: 10.1021/ic990818p] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The host-guest interactions between ortho- (Ph), pyro- (Pp), and tripolyphosphate (Tr) anions together with ATP (At), ADP (Ad), and AMP (Am) nucleotides and the hexaazamacrocyclic ligand 3,7,11,19,23,27-hexaazatricyclo[27311(13,17)]triaconta- 1(32),13,15,17(34),29(33),30-hexaene (Bn) have been investigated by potentiometric equilibrium methods. Ternary complexes are formed in aqueous solution as a result of hydrogen bond formation and Coulombic attraction between the host and the guest. Formation constants for all the species obtained are reported. The selectivity of the Bn ligand with regard to the phosphate and nucleotide substrates is discussed and illustrated with species distribution diagrams. A comparison of the present results with those obtained for the similar but smaller macrocyclic ligand 3,6,9,17,20,23- hexaazatricyclo[23311(11,15)]triaconta-1(29),11(30),12,14,25,27-hexaene (Bd) is also discussed. It is found that the competition of the Bd and Bn ligands for the formation of ternary species with a specific substrate is strongly dependent on the p[H]. The crystal structure of the compound [(H6Bn)(H2PO4)6]2H2O with empirical formula C28H68N6O26P6 has been solved by means of X-ray diffraction analysis. The compound belongs to the triclinic P1 space group with Z = 1, a = 8892(2) A, b = 9369(4) A, c = 16337(8) A, alpha = 7372(4) degrees, beta = 8301(4) degrees, and gamma = 6481(3) degrees. The phosphate counterions are found to bridge adjacent layers of macrocyclic molecules through an extensive hydrogen-bonding network
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Affiliation(s)
- C Anda
- Departament de Química, Universitat de Girona, Campus de Montilivi 17071, Girona, Spain
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Anda C, Llobet A, Salvado V, Martell AE, Motekaitis RJ. A systematic evaluation of molecular recognition phenomena. 2. Interaction between phosphates and nucleotides with hexaazamacrocyclic ligands containing diethylic ether spacers. Inorg Chem 2000; 39:3000-8. [PMID: 11196894 DOI: 10.1021/ic9908468] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The host-guest interactions between ortho- (Ph), pyro- (Pp), and tripolyphosphate (Tr) anions together with ATP (At), ADP (Ad), and AMP (Am) nucleotides and the two hexaazamacrocyclic ligands 1,15-dioxa-4,8,12,18,22,26-hexaazacyclooctacosane (Pn) and 1,13-dioxa-4,7,10,16,20,24-hexaazacyclohexacosane (Op) have been investigated by potentiometric equilibrium methods. Ternary complexes are formed in aqueous solution as a result of hydrogen bond formation and Coulombic attraction between the host and the guest. Formation constants for all the species obtained are reported. The selectivity of the Pn and Op ligands with regard to the different phosphate and nucleotide substrates is discussed and illustrated with total species distribution diagrams. A comparison is also carried out, with the results obtained in this work and those obtained previously with three other closely related hexaazamacrocyclic ligands. This comparison manifests the importance of ligand basicity, rigidity, and pi-stacking capability in order to understand their binding and selectivity.
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Affiliation(s)
- C Anda
- Departament de Química, Universitat de Girona, Campus de Montilivi 17071, Girona, Spain
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Jeong H, Choi EM, Kang SO, Nam KC, Jeon S. Electrochemistry of a urea-functionalized calix[4]diquinone sulfate-anion selective receptor. J Electroanal Chem (Lausanne) 2000. [DOI: 10.1016/s0022-0728(00)00108-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Berger M, Schmidtchen FP. Zwitterionic Guanidinium Compounds Serve as Electroneutral Anion Hosts. J Am Chem Soc 1999. [DOI: 10.1021/ja992028k] [Citation(s) in RCA: 71] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Nam KC, Kang SO, Jeong HS, Jeon S. Urea derivative of calix[4]diquinone: HSO4− ion selective receptor. Tetrahedron Lett 1999. [DOI: 10.1016/s0040-4039(99)01505-1] [Citation(s) in RCA: 40] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Lopez X, Dejaegere A, Karplus M. Mechanism of Alkaline Hydrolysis of Cyclic and Acyclic Sulfates: An ab Initio Study with Solvation Correction. J Am Chem Soc 1999. [DOI: 10.1021/ja984193q] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Xabier Lopez
- Contribution from the Laboratoire de Chimie Biophysique, Institut le Bel, Université Louis Pasteur, 67000 Strasbourg, France, Groupe RMNUPR 9003, ESBS Boulevard S. Brant, 67400 Illkirch, France, and Department of Chemistry & Chemical Biology, Harvard University, Cambridge, Massachusetts 02138
| | - Annick Dejaegere
- Contribution from the Laboratoire de Chimie Biophysique, Institut le Bel, Université Louis Pasteur, 67000 Strasbourg, France, Groupe RMNUPR 9003, ESBS Boulevard S. Brant, 67400 Illkirch, France, and Department of Chemistry & Chemical Biology, Harvard University, Cambridge, Massachusetts 02138
| | - Martin Karplus
- Contribution from the Laboratoire de Chimie Biophysique, Institut le Bel, Université Louis Pasteur, 67000 Strasbourg, France, Groupe RMNUPR 9003, ESBS Boulevard S. Brant, 67400 Illkirch, France, and Department of Chemistry & Chemical Biology, Harvard University, Cambridge, Massachusetts 02138
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Jagessar RC, Shang M, Scheidt WR, Burns DH. Neutral Ligands for Selective Chloride Anion Complexation: (α,α,α,α)-5,10,15,20-Tetrakis(2-(arylurea)phenyl)porphyrins. J Am Chem Soc 1998. [DOI: 10.1021/ja982052i] [Citation(s) in RCA: 83] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Raymond C. Jagessar
- Contribution from the Department of Chemistry, Wichita State University, Wichita, Kansas 67260, and Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556
| | - Maoyu Shang
- Contribution from the Department of Chemistry, Wichita State University, Wichita, Kansas 67260, and Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556
| | - W. Robert Scheidt
- Contribution from the Department of Chemistry, Wichita State University, Wichita, Kansas 67260, and Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556
| | - Dennis H. Burns
- Contribution from the Department of Chemistry, Wichita State University, Wichita, Kansas 67260, and Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556
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