1
|
Neya S, Nagai M, Nagatomo S, Hoshino T, Yoneda T, Kawaguchi AT. Utility of heme analogues to intentionally modify heme-globin interactions in myoglobin. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2015; 1857:582-588. [PMID: 26435388 DOI: 10.1016/j.bbabio.2015.09.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/22/2015] [Revised: 09/12/2015] [Accepted: 09/25/2015] [Indexed: 01/01/2023]
Abstract
Myoglobin reconstitution with various synthetic heme analogues was reviewed to follow the consequences of modified heme-globin interactions. Utility of dimethyl sulfoxide as the solvent for water-insoluble hemes was emphasized. Proton NMR spectroscopy revealed that loose heme-globin contacts in the heme pocket eventually caused the dynamic heme rotation around the iron-histidine bond. The full rotational rate was estimated to be about 1400 s(-1) at room temperature for 1,4,5,8-tetramethylhemin. The X-ray analysis of the myoglobin containing iron porphine, the smallest heme without any side chains, showed that the original globin fold was well conserved despite the serious disruption of native heme-globin contacts. Comparison between the two myoglobins with static and rotatory prosthetic groups indicated that the oxygen and carbon monoxide binding profiles were almost unaffected by the heme motion. On the other hand, altered tetrapyrrole array of porphyrin dramatically changed the dissociation constant of oxygen from 0.0005 mm Hg of porphycene-myoglobin to ∞ in oxypyriporphyrin-myoglobin. Heme-globin interactions in myoglobin were also monitored with circular dichroism spectroscopy. The observation on several reconstituted protein revealed an unrecognized role of the propionate groups in protoheme. Shortening of heme 6,7-propionates to carboxylates resulted in almost complete disappearance of the positive circular dichroism band in the Soret region. The theoretical analysis suggested that the disappeared circular dichroism band reflected the cancellation effects between different conformers of the carboxyl groups directly attached to heme periphery. The above techniques were proposed to be applicable to other hemoproteins to create new biocatalysts. This article is part of a Special Issue entitled Biodesign for Bioenergetics--the design and engineering of electronic transfer cofactors, proteins and protein networks, edited by Ronald L. Koder and J.L. Ross Anderson.
Collapse
Affiliation(s)
- Saburo Neya
- Department of Physical Chemistry, Graduate School of Pharmaceutical Sciences, Chiba University, Chuoh-Inohana, Chiba City, Chiba 260-8675, Japan.
| | - Masako Nagai
- Research Center for Micro-Nano Technology, Hosei University, Koganei, Tokyo 184-0003, Japan
| | - Shigenori Nagatomo
- Department of Chemistry, Graduate School of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571, Japan
| | - Tyuji Hoshino
- Department of Physical Chemistry, Graduate School of Pharmaceutical Sciences, Chiba University, Chuoh-Inohana, Chiba City, Chiba 260-8675, Japan
| | - Tomoki Yoneda
- Department of Physical Chemistry, Graduate School of Pharmaceutical Sciences, Chiba University, Chuoh-Inohana, Chiba City, Chiba 260-8675, Japan
| | - Akira T Kawaguchi
- School of Medicine, Tokai University, Isehara, Kanagawa 259-1193, Japan
| |
Collapse
|
2
|
Nagai M, Kobayashi C, Nagai Y, Imai K, Mizusawa N, Sakurai H, Neya S, Kayanuma M, Shoji M, Nagatomo S. Involvement of Propionate Side Chains of the Heme in Circular Dichroism of Myoglobin: Experimental and Theoretical Analyses. J Phys Chem B 2015; 119:1275-87. [DOI: 10.1021/jp5086203] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Masako Nagai
- Research
Center for Micro-Nano Technology, Hosei University, Koganei, Tokyo 184-0003, Japan
- School
of Health Sciences, College of Medical, Pharmaceutical and Health
Sciences, Kanazawa University, Kanazawa 920-0942, Japan
| | - Chika Kobayashi
- Department
of Frontier Bioscience, Faculty of Bioscience and Applied Chemistry, Hosei University, Koganei, Tokyo 184-8584, Japan
| | - Yukifumi Nagai
- Research
Center for Micro-Nano Technology, Hosei University, Koganei, Tokyo 184-0003, Japan
| | - Kiyohiro Imai
- Department
of Frontier Bioscience, Faculty of Bioscience and Applied Chemistry, Hosei University, Koganei, Tokyo 184-8584, Japan
| | - Naoki Mizusawa
- Research
Center for Micro-Nano Technology, Hosei University, Koganei, Tokyo 184-0003, Japan
- Department
of Frontier Bioscience, Faculty of Bioscience and Applied Chemistry, Hosei University, Koganei, Tokyo 184-8584, Japan
| | - Hiroshi Sakurai
- School
of Health Sciences, College of Medical, Pharmaceutical and Health
Sciences, Kanazawa University, Kanazawa 920-0942, Japan
| | - Saburo Neya
- Department
of Physical Chemistry, Graduate School of Pharmaceutical Sciences, Chiba University, Inohana, Chuo-Ku, Chiba 260-8675, Japan
| | - Megumi Kayanuma
- Department
of Computer Science, Graduate School of Systems and Information Engineering, University of Tsukuba, Tsukuba, Ibaraki 305-8573, Japan
| | - Mitsuo Shoji
- Department
of Physics, Graduate School of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571, Japan
| | - Shigenori Nagatomo
- Department
of Chemistry, Graduate School of Pure and Applied Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8571, Japan
| |
Collapse
|
3
|
Juillard S, Chevance S, Bondon A, Simonneaux G. Dynamics of heme in hemoproteins: proton NMR study of myoglobin reconstituted with iron 3-ethyl-2-methylporphyrin. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2011; 1814:1188-94. [PMID: 21600316 DOI: 10.1016/j.bbapap.2011.04.016] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2011] [Revised: 04/23/2011] [Accepted: 04/27/2011] [Indexed: 11/19/2022]
Abstract
The asymmetric 3-ethyl-2-methylporphyrin iron complex was synthetized and inserted into apomyoglobin. UV-visible spectroscopic studies demonstrated the capacity of iron to coordinate different exogenous axial ligands in ferrous and ferric forms. The position of synthetic heme into the hydrophobic pocket of the reconstituted myoglobin was investigated by ((1))H NMR spectroscopy. In absence of exogenous ligand, signals of the synthetic prosthetic group were not detected, suggesting a rotational disorder of the synthetic porphyrin into the heme pocket. This direct interconversion behavior is favored since site-specific interactions between the poorly substituted heme and protein in the chiral hydrophobic cavity were weak. Complexion of cyanide to the iron allowed to quench partially the heme reorientation and two interconvertible forms, around the meso-Cα-Cγ axis, were detected in solution.
Collapse
Affiliation(s)
- Sandrine Juillard
- UMR 6226 Sciences Chimiques de Rennes, Campus de Beaulieu, Université de Rennes 1, Rennes, France
| | | | | | | |
Collapse
|
4
|
Juillard S, Bondon A, Simonneaux G. Proton NMR study of myoglobin reconstituted with 3,7-diethyl-2,8-dimethyl iron porphyrin: Remarkable influence of peripheral substitution on heme rotation. J Inorg Biochem 2006; 100:1441-8. [PMID: 16766034 DOI: 10.1016/j.jinorgbio.2006.04.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2005] [Revised: 04/03/2006] [Accepted: 04/06/2006] [Indexed: 11/29/2022]
Abstract
The iron complex of 3,7-diethyl-2,8-dimethylporphyrin was incorporated into horse heart apomyoglobin to investigate the influence of peripheral substitution on artificial heme rotation. The hyperfine-shifted 1H NMR spectrum of the reconstituted deoxymyoglobin (rMb) revealed the proximal imidazole N-H resonance at 82.5 ppm to indicate the formation of the Fe--N (His93) bond. The pyrrole-protons of the hemin of myoglobin in the absence of external ligand appeared as four resonances between -10 and -18 ppm, indicating a mainly low-spin ferric hemin, with a ligated distal histidine (His64). This also indicates the lost of the symmetry of the hemin, according to an absence of free rotation of the prosthetic group. The 1H NMR spectrum of reconstituted rMbCO revealed a set of four pyrrole-protons and a set of four meso-protons. Accordingly, the prosthetic group without acid side chains interacts specifically with the surrounding globin showing a unique heme orientation in the 1H NMR time-scale, despite the presence of only four alkyl substituents on the porphine ring. This also suggests that two ethyl groups are large enough to avoid the free rotation movement of the heme.
Collapse
Affiliation(s)
- Sandrine Juillard
- Laboratoire de Chimie Organométallique et Biologique, UMR CNRS 6226, Campus de Beaulieu, Université de Rennes 1, 35042 Rennes, France
| | | | | |
Collapse
|
5
|
Neya S, Ohgo Y, Nakamura M, Funasaki N. Unique Aspects of the 1-Methylimidazole Ligation to Corrphycenatoiron(III). BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2000. [DOI: 10.1246/bcsj.73.2759] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
|
6
|
Singh UP, Obayashi E, Takahashi S, Iizuka T, Shoun H, Shiro Y. The effects of heme modification on reactivity, ligand binding properties and iron-coordination structures of cytochrome P450nor. BIOCHIMICA ET BIOPHYSICA ACTA 1998; 1384:103-11. [PMID: 9602081 DOI: 10.1016/s0167-4838(98)00006-5] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Artificial cytochrome P450nors (nitric oxide reductase) were prepared by replacing the native protoheme with various 2,4-substituted hemes: meso-, deutero-, and diacetyldeutero-hemes. For these samples, the ratio of low spin/high spin states of the ferric resting enzyme were varied, indicating that the coordination of the water molecule at the iron sixth site was affected by the electron withdrawing capacities of the heme 2,4-substituents. The binding of the water molecule reduces the rate of binding of nitric oxide (NO) to the ferric iron. In addition, the reduction reaction of the ferric-NO complex with NADH, which constitutes the second step in the NO reduction, was facilitated by the electron withdrawing capacity of 2,4-substituents. Consequently, proto- (native-) P450nor exhibited the highest overall enzymatic activity (NO reduction activity), while the enzymes containing diacetyl-, deutero-, and meso-hemes had considerably lower activities, since the NO reduction activity is determined by a balance of the reaction rates of the above two steps. The optical absorption spectra of the ferric-NO and the ferrous-CO complexes of the reconstituted enzymes show that the electron density on the heme in both states was modulated by the substituent groups. However, the resonance Raman spectral measurements showed that the Fe-NO and N-O stretching frequencies in the ferric-NO complex were insensitive to the electron density of the heme while the Fe-CO and C-O stretching frequencies in the ferrous-CO complex were sensitively varied by the electron withdrawing capacity of the 2,4-substituent. The differences are discussed in terms of the difference in the iron-ligand bond characters between the ferric-NO and the ferrous-CO complexes.
Collapse
Affiliation(s)
- U P Singh
- Institute of Physical and Chemical Research (RIKEN), Saitama, Japan
| | | | | | | | | | | |
Collapse
|
7
|
Neya S, Funasaki N, Igarashi N, Ikezaki A, Sato T, Imai K, Tanaka N. Structure and function of 6,7-dicarboxyheme-substituted myoglobin. Biochemistry 1998; 37:5487-93. [PMID: 9548931 DOI: 10.1021/bi972632c] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Myoglobin was reconstituted with 6,7-dicarboxy-1,2,3,4,5, 8-hexamethylheme, a compact synthetic heme with the shortest acid side chains, to pursue the structural and functional consequences after intensive disruption of the heme propionate-apoglobin linkages in the native protein. The electron-withdrawing carboxylate groups directly attached to the porphyrin ring lowered the oxygen affinity by 3-fold as compared with native myoglobin. Autoxidation of the oxy derivative to the ferric protein proceeded with 1.6 x 10(-)2 min-1 at pH 7.0 and 30 degrees C. The crystallographic structure of the cyanomet myoglobin with 1.9 A resolution shows that the heme adopts a unique orientation in the protein pocket to extend the two carboxylates toward solvent sphere. The native globin fold is conserved, and the conformations of globin side chains are almost intact except for those located nearby the heme 6,7-carboxylates. The 7-carboxylate only weakly interacts with Ser92 and His97 through two mediating water molecules. The 6-carboxylate, on the other hand, forms a novel salt bridge with Arg45 owing to conformational flexibility of the guanidinium side chain. The proton NMR shows that the small heme does not fluctuate about the iron-histidine bond even at 55 degreesC, suggesting that the salt bridge between Arg45 and heme 6-carboxylate is of critical importance to recognize and fix the heme in myoglobin.
Collapse
Affiliation(s)
- S Neya
- Department of Physical Chemistry, Kyoto Pharmaceutical University, Japan.
| | | | | | | | | | | | | |
Collapse
|
8
|
Neya S, Funasaki N. A facile synthesis of the lowest homologues ofmeso-tetraalkylporphyrin. J Heterocycl Chem 1997. [DOI: 10.1002/jhet.5570340259] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
|
9
|
Yamamoto Y. 1H NMR Study of the Heme Molecular Structure in Sperm Whale Met-Aquo and Met-Imidazole Myoglobins. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 1996. [DOI: 10.1246/bcsj.69.2947] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
|
10
|
Neya S, Funasaki N, Shiro Y, Iizuka T, Imai K. Consequence of rapid heme rotation to the oxygen binding of myoglobin. BIOCHIMICA ET BIOPHYSICA ACTA 1994; 1208:31-7. [PMID: 8086436 DOI: 10.1016/0167-4838(94)90156-2] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
The myoglobin complexed with octamethylhemin was prepared. The visible absorption profiles are typical of general alkylhemin-substituted myoglobins, suggesting normal insertion of the hemin into the hydrophobic cavity. The NMR spectra of various ferric proteins were anomalous, without clearly resolved signals from the prosthetic group, most probably reflecting rapid heme rotation about the iron-histidine bond. The equilibrium and kinetic oxygen bindings were measured to examine the functional significance of the heme motion. Functional comparison with the myoglobin having immobile hemin indicates that rotation of the octamethylheme negligibly affects the myoglobin function. The results suggest that neither the heme peripheral contacts nor the proximal imidazole orientation about the heme normal is the dominant factor to control myoglobin function.
Collapse
Affiliation(s)
- S Neya
- Department of Physical Chemistry, Kyoto Pharmaceutical University, Japan
| | | | | | | | | |
Collapse
|
11
|
Yamamoto Y, Suzuki T. NMR study of the molecular and electronic structure of the heme cavity in Dolabella met-cyano myoglobin. BIOCHIMICA ET BIOPHYSICA ACTA 1993; 1163:287-96. [PMID: 8507668 DOI: 10.1016/0167-4838(93)90164-m] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
The molecular and electronic structure of the active site of the cyanide-ligated ferric complex of the myoglobin from the mollusc Dolabella auricularia has been investigated using NMR. Analysis of nuclear Overhauser effects has revealed that the correlation times for the internal motion of the heme propionate alpha-CH2 and beta-CH2 groups at ambient temperature are about 5 and 4 ns, respectively. These correlation times indicate that the terminal carboxylate groups of both the heme propionates are not bound to the protein via salt bridges. Although the absence of the propionate-protein interaction does not influence the equilibrium population of the two heme orientational isomers involving rotation about the alpha,gamma-meso axis, it allows the heme to rotate about the iron-His bond in the active site of the myoglobin. Such rotational motion of the heme resulted in an anomalous temperature-dependence of the heme methyl-proton hyperfine shift. Thus the present myoglobin studies provide the first example demonstrating the rotation of the heme about the iron-His bond in native myoglobin.
Collapse
Affiliation(s)
- Y Yamamoto
- Department of Biomolecular Engineering, Tokyo Institute of Technology, Japan
| | | |
Collapse
|
12
|
Neya S, Funasaki N, Sato T, Igarashi N, Tanaka N. Structural analysis of the myoglobin reconstituted with iron porphine. J Biol Chem 1993. [DOI: 10.1016/s0021-9258(18)52962-8] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
|
13
|
|
14
|
SABURONEYA, NORIAKIFUNASAKI, MIKIONAKAMURA. Dynamic analysis of efficient heme rotation in myoglobin by NMR spectroscopy. Biochim Biophys Acta Gen Subj 1992. [DOI: 10.1016/0304-4165(92)90020-u] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
|
15
|
Sato T, Tanaka N, Neya S, Funasaki N, Iizuka T, Shiro Y. Kinetic studies on CO binding to reconstituted myoglobins with four synthetic hemes; structural control in ligand binding to myoglobin. BIOCHIMICA ET BIOPHYSICA ACTA 1992; 1121:1-7. [PMID: 1599931 DOI: 10.1016/0167-4838(92)90329-c] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Examination was made of CO binding reactions to four kinds of modified sperm whale myoglobin (Mb), whose heme was reconstituted by iron complexes of synthetic porphyrins such as porphine (Por), meso-tetramethylporphyrin (TMeP), meso-tetraethylporphyrin (TEtP) and meso-tetra(n-propyl)porphyrin (TnPrP), using flash photolysis and stopped-flow methods. The CO association rate was found to be 5- to 20-times and dissociation rate 10- to 36-times accelerated by replacement with synthetic hemes. These features could be explained based on characteristic structures of modified Mbs indicated by X-ray crystallography. The side chain of Arg-45 protruded from the heme vicinity into the solvent region and heme was tilted by interactions of meso-alkyl side chains with surrounding peptides, resulting in the formation of widely opened channels and pockets for ligand passage. These structural features indicate the CO ligand to more easily enter or exit from heme pockets of reconstituted myoglobins, compared to native Mb.
Collapse
Affiliation(s)
- T Sato
- Faculty of Bioscience and Biotechnology, Department of Life Sciences, Tokyo Institute of Technology, Yokohama, Japan
| | | | | | | | | | | |
Collapse
|
16
|
Sato T, Tanaka N, Moriyama H, Matsumoto O, Takenaka A, Neya S, Funasaki N. The Crystal Structures of Cyanide Metmyoglobins Reconstituted with Iron(III) Complexes of Porphyrin, 5,10,15,20-Tetramethylporphyrin, and 5,10,15,20-Tetraethylporphyrin. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 1992. [DOI: 10.1246/bcsj.65.739] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
|
17
|
Hata T, Hata Y, Sato T, Tanaka N, Neya S, Funasaki N, Katsube Y. The 2.0 Å Crystal Structure of Cyanide Metmyoglobin Reconstituted with 5,10,15,20-Tetrapropylhemin. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 1991. [DOI: 10.1246/bcsj.64.821] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
|
18
|
Neya S, Funasaki N, Imai K. Etiohemin as a prosthetic group of myoglobin. BIOCHIMICA ET BIOPHYSICA ACTA 1989; 996:226-32. [PMID: 2752047 DOI: 10.1016/0167-4838(89)90251-3] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
Sperm whale myoglobin was reconstituted with etioheme and the stoichiometric complex formation was confirmed. The proton NMR spectrum of the deoxy myoglobin exhibits an NH signal from the proximal histidine at 78.6 ppm, indicating heme incorporation into the heme pocket to form the Fe-N(His-F8) bond. The appearance of a single set of the heme-methyl NMR signals shows that etioheme without acid side-chains specifically interacts with the surrounding globin. The visible spectral data suggest retention of a normal iron coordination structure. The functional and NMR spectral properties of etioheme myoglobin are similar to those of mesoheme myoglobin, reflecting the absence of the electron-withdrawing heme vinyl groups.
Collapse
Affiliation(s)
- S Neya
- Department of Physical Chemistry, Kyoto Pharmaceutical University, Yamashina, Japan
| | | | | |
Collapse
|
19
|
Nakamura M. Dissociation rates of axially coordinated imidazoles and formation constants of low spin ferric complexes derived from tetraphenylporphyrin and tetramesitylporphyrin. Inorganica Chim Acta 1989. [DOI: 10.1016/s0020-1693(00)90118-x] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|