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Vazquez Ramos J, Kulka-Peschke CJ, Bechtel DF, Zebger I, Pierik AJ, Layer G. Characterization of the iron-sulfur clusters in the nitrogenase-like reductase CfbC/D required for coenzyme F 430 biosynthesis. FEBS J 2024; 291:3233-3248. [PMID: 38588274 DOI: 10.1111/febs.17134] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2023] [Revised: 02/14/2024] [Accepted: 03/28/2024] [Indexed: 04/10/2024]
Abstract
Coenzyme F430 is a nickel-containing tetrapyrrole, serving as the prosthetic group of methyl-coenzyme M reductase in methanogenic and methanotrophic archaea. During coenzyme F430 biosynthesis, the tetrapyrrole macrocycle is reduced by the nitrogenase-like CfbC/D system consisting of the reductase component CfbC and the catalytic component CfbD. Both components are homodimeric proteins, each carrying a [4Fe-4S] cluster. Here, the ligands of the [4Fe-4S] clusters of CfbC2 and CfbD2 were identified revealing an all cysteine ligation of both clusters. Moreover, the midpoint potentials of the [4Fe-4S] clusters were determined to be -256 mV for CfbC2 and -407 mV for CfbD2. These midpoint potentials indicate that the consecutive thermodynamically unfavorable 6 individual "up-hill" electron transfers to the organic moiety of the Ni2+-sirohydrochlorin a,c-diamide substrate require an intricate interplay of ATP-binding, hydrolysis, protein complex formation and release to drive product formation, which is a common theme in nitrogenase-like systems.
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Affiliation(s)
- José Vazquez Ramos
- Pharmazeutische Biologie, Institut für Pharmazeutische Wissenschaften, Albert-Ludwigs-Universität Freiburg, Germany
| | | | | | - Ingo Zebger
- Institut für Chemie, Technische Universität Berlin, Germany
| | | | - Gunhild Layer
- Pharmazeutische Biologie, Institut für Pharmazeutische Wissenschaften, Albert-Ludwigs-Universität Freiburg, Germany
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Brenig C, Mosberger L, Blacque O, Kissner R, Zelder F. Reversible metal-centered reduction empowers a Ni-Corrin to mimic F430. Chem Commun (Camb) 2021; 57:7260-7263. [PMID: 34195716 DOI: 10.1039/d1cc02945b] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This communication presents a novel truncated NiII-containing metbalamin and describes its reversible one electron reduction to a catalytically active NiI species, that features cofactor F430 model character. Our results strikingly demonstrate that stabilization of NiI is not restricted to the related hydroporhyrinoid ligands and is of relevance to the application of metallocorrins in (biomimetic) catalysis.
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Affiliation(s)
- Christopher Brenig
- Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057 Zurich, Switzerland.
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Brenig C, Prieto L, Oetterli R, Zelder F. Ein NiII
-haltiges Vitamin-B12
-Derivat mit einem Kofaktor-F430-artigen π-System. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201810983] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Christopher Brenig
- Institut für Chemie; Universität Zürich; Winterthurerstrasse 190 8057 Zürich Schweiz
| | - Lucas Prieto
- Institut für Chemie; Universität Zürich; Winterthurerstrasse 190 8057 Zürich Schweiz
| | - René Oetterli
- Institut für Chemie; Universität Zürich; Winterthurerstrasse 190 8057 Zürich Schweiz
| | - Felix Zelder
- Institut für Chemie; Universität Zürich; Winterthurerstrasse 190 8057 Zürich Schweiz
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Brenig C, Prieto L, Oetterli R, Zelder F. A Nickel(II)-Containing Vitamin B12
Derivative with a Cofactor-F430-type π-System. Angew Chem Int Ed Engl 2018; 57:16308-16312. [DOI: 10.1002/anie.201810983] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2018] [Indexed: 11/05/2022]
Affiliation(s)
- Christopher Brenig
- Department of Chemistry; University of Zurich; Winterthurerstrasse 190 8057 Zurich Switzerland
| | - Lucas Prieto
- Department of Chemistry; University of Zurich; Winterthurerstrasse 190 8057 Zurich Switzerland
| | - René Oetterli
- Department of Chemistry; University of Zurich; Winterthurerstrasse 190 8057 Zurich Switzerland
| | - Felix Zelder
- Department of Chemistry; University of Zurich; Winterthurerstrasse 190 8057 Zurich Switzerland
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Elucidation of the biosynthesis of the methane catalyst coenzyme F 430. Nature 2017; 543:78-82. [PMID: 28225763 PMCID: PMC5337119 DOI: 10.1038/nature21427] [Citation(s) in RCA: 84] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2016] [Accepted: 01/25/2017] [Indexed: 02/06/2023]
Abstract
Methane biogenesis in methanogens is mediated by methyl-coenzyme M reductase, an enzyme that is also responsible for the utilisation of methane through anaerobic methane oxidation. The enzyme employs an ancillary factor called coenzyme F430, a nickel-containing modified tetrapyrrole that promotes catalysis through a novel methyl radical/Ni(II)-thiolate intermediate. However, the biosynthesis of coenzyme F430 from the common primogenitor uroporphyrinoge III, incorporating 11 steric centres into the macrocycle, has remained poorly understood although the pathway must involve chelation, amidation, macrocyclic ring reduction, lactamisation and carbocyclic ring formation. We have now identified the proteins that catalyse coenzyme F430 biosynthesis from sirohydrochlorin, termed CfbA-E, and shown their activity. The research completes our understanding of how nature is able to construct its repertoire of tetrapyrrole-based life pigments, permitting the development of recombinant systems to utilise these metalloprosthetic groups more widely.
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Guberman-Pfeffer MJ, Greco JA, Samankumara LP, Zeller M, Birge RR, Gascón JA, Brückner C. Bacteriochlorins with a Twist: Discovery of a Unique Mechanism to Red-Shift the Optical Spectra of Bacteriochlorins. J Am Chem Soc 2016; 139:548-560. [DOI: 10.1021/jacs.6b12419] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
| | - Jordan A. Greco
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060, United States
| | - Lalith P. Samankumara
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060, United States
| | - Matthias Zeller
- Department
of Chemistry, Youngstown State University, One University Plaza, Youngstown, Ohio 44555-3663, United States
| | - Robert R. Birge
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060, United States
- Department
of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut 06269-3125, United States
| | - José A. Gascón
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060, United States
| | - Christian Brückner
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060, United States
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Discovery of multiple modified F(430) coenzymes in methanogens and anaerobic methanotrophic archaea suggests possible new roles for F(430) in nature. Appl Environ Microbiol 2014; 80:6403-12. [PMID: 25107965 DOI: 10.1128/aem.02202-14] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Methane is a potent greenhouse gas that is generated and consumed in anaerobic environments through the energy metabolism of methanogens and anaerobic methanotrophic archaea (ANME), respectively. Coenzyme F430 is essential for methanogenesis, and a structural variant of F430, 17(2)-methylthio-F430 (F430-2), is found in ANME and is presumably essential for the anaerobic oxidation of methane. Here we use liquid chromatography-high-resolution mass spectrometry to identify several new structural variants of F430 in the cell extracts of selected methanogens and ANME. Methanocaldococcus jannaschii and Methanococcus maripaludis contain an F430 variant (denoted F430-3) that has an M(+) of 1,009.2781. This mass increase of 103.9913 over that of F430 corresponds to C3H4O2S and is consistent with the addition of a 3-mercaptopropionate moiety bound as a thioether followed by a cyclization. The UV absorbance spectrum of F430-3 was different from that of F430 and instead matched that of an F430 derivative where the 17(3) keto moiety had been reduced. This is the first report of a modified F430 in methanogens. In a search for F430-2 and F430-3 in other methanogens and ANME, we have identified a total of nine modified F430 structures. One of these compounds may be an abiotic oxidative product of F430, but the others represent naturally modified versions of F430. This work indicates that F430-related molecules have additional functions in nature and will inspire further research to determine the biochemical role(s) of these variants and the pathways involved in their biosynthesis.
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Lewis NJ, Pfaltz A, Eschenmoser A. Säurekatalysierte Entmetallierung von Nickel-hydrocorphin- und Cobalt-corrinkomplexen mit 1,3-Propandithiol. Angew Chem Int Ed Engl 2006. [DOI: 10.1002/ange.19830950920] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Färber G, Keller W, Kratky C, Jaun B, Pfaltz A, Spinner C, Kobelt A, Eschenmoser A. Coenzyme F430 from Methanogenic Bacteria: Complete Assignment of Configuration Based on an X-Ray Analysis of 12,13-Diepi-F430 Pentamethyl Ester and on NMR Spectroscopy. Helv Chim Acta 2004. [DOI: 10.1002/hlca.19910740404] [Citation(s) in RCA: 94] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Fässler A, Kobelt A, Pfaltz A, Eschenmoser A, Bladon C, Battersby AR, Thauer RK. Zur Kenntnis des Faktors F430 aus methanogenen Bakterien: Absolute Konfiguration. Helv Chim Acta 2004. [DOI: 10.1002/hlca.19850680824] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Montforts FP, Glasenapp-Breiling M. Naturally occurring cyclic tetrapyrroles. FORTSCHRITTE DER CHEMIE ORGANISCHER NATURSTOFFE = PROGRESS IN THE CHEMISTRY OF ORGANIC NATURAL PRODUCTS. PROGRES DANS LA CHIMIE DES SUBSTANCES ORGANIQUES NATURELLES 2002; 84:1-51. [PMID: 12132388 DOI: 10.1007/978-3-7091-6160-9_1] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/25/2023]
Affiliation(s)
- F P Montforts
- Institut für Organische Chemie, Universität Bremen, Bremen, Germany
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Electrogeneration and characterization of a poly(pyrrole–nickel (II) chlorin) electrode. Electrochem commun 2002. [DOI: 10.1016/s1388-2481(02)00337-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
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Wedel M, Walter A, Montforts FP. Synthesis of Metalloporphyrins and Metallochlorins for Immobilization on Electrode Surfaces. European J Org Chem 2001. [DOI: 10.1002/1099-0690(200105)2001:9<1681::aid-ejoc1681>3.0.co;2-q] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Montforts FP, Glasenapp-Breiling M. Chapter 1 The synthesis of chlorins, bacteriochlorins, isobacteriochlorins and higher reduced porphyrins. PROGRESS IN HETEROCYCLIC CHEMISTRY 1998. [DOI: 10.1016/s0959-6380(98)80003-2] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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MELNIK, MILAN, SRAMKO, TIBOR, DUNAJ--JURCO, MICHAL, SIROTA, ANTON, AY, CLIVEEHOLLOW. NICKEL COORDINATION COMPOUNDS: CLASSIFICATION AND ANALYSIS OF CRYSTALLOGRAPHIC AND STRUCTURAL DATA. REV INORG CHEM 1994. [DOI: 10.1515/revic.1994.14.1-4.1] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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Kuhner CH, Lindenbach BD, Wolfe RS. Component A2 of methylcoenzyme M reductase system from Methanobacterium thermoautotrophicum delta H: nucleotide sequence and functional expression by Escherichia coli. J Bacteriol 1993; 175:3195-203. [PMID: 8491734 PMCID: PMC204644 DOI: 10.1128/jb.175.10.3195-3203.1993] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023] Open
Abstract
The gene for component A2 of the methylcoenzyme M reductase system from Methanobacterium thermoautotrophicum delta H was cloned, and its nucleotide sequence was determined. The gene for A2, designated atwA, encodes an acidic protein of 59,335 Da. Amino acid sequence analysis revealed partial homology of A2 to a number of eucaryotic and bacterial proteins in the ATP-binding cassette (ABC) family of transport systems. Component A2 possesses two ATP-binding domains. A 2.2-kb XmaI-BamHI fragment containing atwA and the surrounding open reading frames was cloned into pGEM-7Zf(+). A cell extract from this strain replaced purified A2 from M. thermoautotrophicum delta H in an in vitro methylreductase assay.
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Affiliation(s)
- C H Kuhner
- Department of Microbiology, University of Illinois, Urbana 61801
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Pfaltz A, Kobelt A, Hüster R, Thauer RK. Biosynthesis of coenzyme F430 in methanogenic bacteria. Identification of 15,17(3)-seco-F430-17(3)-acid as an intermediate. EUROPEAN JOURNAL OF BIOCHEMISTRY 1987; 170:459-67. [PMID: 3691535 DOI: 10.1111/j.1432-1033.1987.tb13722.x] [Citation(s) in RCA: 32] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Coenzyme F430 is a hydroporphinoid nickel complex present in all methanogenic bacteria. It is part of the enzyme system which catalyzes methane formation from methyl-coenzyme M. We describe here that under certain conditions a second nickel porphinoid accumulates in methanogenic bacteria. The compound was identified at 15,17(3)-seco-F430-17(3)-acid. The structural assignment rests on 14C-labelling experiments, fast-atom-bombardment mass spectra, 1H-NMR spectra of the corresponding hexamethyl ester, and ultraviolet/visible spectral comparison with model compounds. In cell extracts and in intact cells of methanogenic bacteria, 15,17(3)-seco-F430-17(3)-acid was converted to F430. These findings indicate that the new nickel-containing porphinoid is an intermediate in the biosynthesis of coenzyme F430.
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Affiliation(s)
- A Pfaltz
- Laboratorium für Organische Chemie, Eidgenössische Technische Hochschule, Zürich, Federal Republic of Germany
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Pfaltz A, Livingston DA, Jaun B, Diekert G, Thauer RK, Eschenmoser A. Zur Kenntnis des Faktors F430 aus methanogenen Bakterien: Über die Natur der Isolierungsartefakte von F430, ein Beitrag zur Chemie von F430 und zur konformationellen Stereochemie der Ligandperipherie von hydroporphinoiden Nickel(II)-Komplexen. Helv Chim Acta 1985. [DOI: 10.1002/hlca.19850680527] [Citation(s) in RCA: 71] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Kratky C, Waditschatka R, Angst C, Johansen JE, Plaquevent JC, Schreiber J, Eschenmoser A. Die Sattelkonformation der hydroporphinoiden Nickel(II)-Komplexe: Struktur, Ursprung und stereochemische Konsequenzen. Helv Chim Acta 1985. [DOI: 10.1002/hlca.19850680526] [Citation(s) in RCA: 102] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Flitsch W, Schulz D, Kneip HG. Verbindungen mit verminderten Porphin-π-Systemen: Synthese des 12,13,17,18-Tetranorporphins, der Stammverbindung der Isobakteriochlorine. ACTA ACUST UNITED AC 1985. [DOI: 10.1002/jlac.198519850514] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Daniels L, Sparling R, Sprott GD. The bioenergetics of methanogenesis. BIOCHIMICA ET BIOPHYSICA ACTA 1984; 768:113-63. [PMID: 6236847 DOI: 10.1016/0304-4173(84)90002-8] [Citation(s) in RCA: 157] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
The reduction of CO2 or any other methanogenic substrate to methane serves the same function as the reduction of oxygen, nitrate or sulfate to more reduced products. These exergonic reactions are coupled to the production of usable energy generated through a charge separation and a protonmotive-force-driven ATPase. For the understanding of how methanogens derive energy from C-1 unit reduction one must study the biochemistry of the chemical reactions involved and how these are coupled to the production of a charge separation and subsequent electron transport phosphorylation. Data on methanogenesis by a variety of organisms indicates ubiquitous use of CH3-S-CoM as the final electron acceptor in the production of methane through the methyl CoM reductase and of 5-deazaflavin as a primary source of reducing equivalents. Three known enzymes serve as catalysts in the production of reduced 5-deazaflavin: hydrogenase, formate dehydrogenase and CO dehydrogenase. All three are potential candidates for proton pumps. In the organisms that must oxidize some of their substrate to obtain electrons for the reduction of another portion of the substrate to methane (e.g., those using formate, methanol or acetate), the latter two enzymes may operate in the oxidizing direction. CO2 is the most frequent substrate for methanogenesis but is the only substrate that obligately requires the presence of H2 and hydrogenase. Growth on methanol requires a B12-containing methanol-CoM methyl transferase and does not necessarily need any other methanogenic enzymes besides the methyl-CoM reductase system when hydrogenase is present. When bacteria grow on methanol alone it is not yet clear if they get their reducing equivalents from a reversal of methanogenic enzymes, thus oxidizing methyl groups to CO2. An alternative (since these and acetate-catabolizing methanogens possess cytochrome b) is electron transport and possible proton pumping via a cytochrome-containing electron transport chain. Several of the actual components of the methanogenic pathway from CO2 have been characterized. Methanofuran is apparently the first carbon-carrying cofactor in the pathway, forming carboxy-methanofuran. Formyl-FAF or formyl-methanopterin (YFC, a very rapidly labelled compound during 14C pulse labeling) has been implicated as an obligate intermediate in methanogenesis, since methanopterin or FAF is an essential component of the carbon dioxide reducing factor in dialyzed extract methanogenesis. FAF also carries the carbon at the methylene and methyl oxidation levels.(ABSTRACT TRUNCATED AT 400 WORDS)
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Livingston DA, Pfaltz A, Schreiber J, Eschnmoser A, Ankel-Fuchs D, Moll J, Jaenchen R, Thauer RK. Zur Kenntnis des Faktors F430 aus methanogenen Bakterien: Struktur des proteinfreien Faktors. Helv Chim Acta 1984. [DOI: 10.1002/hlca.19840670141] [Citation(s) in RCA: 83] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Keltjens JT, Caerteling CG, Van Kooten AM, Van Dijk HF, Vogels GD. Chromophoric derivatives of coenzyme MF430, a proposed coenzyme of methanogenesis in Methanobacterium thermoautotrophicum. Arch Biochem Biophys 1983; 223:235-53. [PMID: 6859858 DOI: 10.1016/0003-9861(83)90589-1] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Factors F430 are nickel tetrapyrroles from methanogenic bacteria. Two methods are described to extract these compounds from cells of Methanobacterium thermoautotrophicum, namely, by boiling with 40% ethanol and by treatment of disrupted cells with HClO4 at pH 2 and 0 degrees C. The subsequent purification procedures involving column chromatography are outlined. Ethanol extraction yielded one yellow compound which will be denoted coenzyme MF430 (CoMF430). Extraction with HCIO4 yielded a yellow derivative, called Factor F430II, and a red component (F560). In addition, a number of derivatives were prepared by preparative thin-layer chromatography, acid hydrolysis, and methanolysis of acid hydrolyzates. On the basis of ultraviolet-visible light absorption and mass spectral data, it was concluded that the methylated chromophores obtained by treatment of acid hydrolyzates are derivatives of Ni(II)sirohydrochlorin and its pi-cation radical. Reduction studies and ultraviolet-visible light, 1H-NMR, and mass spectroscopy indicate that the chromophoric derivatives of CoMF430 differ from the native compound with respect to the reduction level of the tetrapyrrole and the structural elements that are attached to the chromophore.
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Pfaltz A, Jaun B, Fassler A, Eschenmoser A, Jaenchen R, Gilles HH, Diekert G, Thauer RK. Zur Kenntnis des Faktors F430 aus methanogenen Bakterien: Struktur des porphinoiden Ligandsystems. Helv Chim Acta 1982. [DOI: 10.1002/hlca.19820650320] [Citation(s) in RCA: 226] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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