EzCatDB: D00459
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DB codeD00459
CATH domainDomain 13.40.50.720 : Rossmann fold
Domain 23.40.50.720 : Rossmann foldCatalytic domain
E.C.1.2.1.2
CSA2nac

CATH domainRelated DB codes (homologues)
3.40.50.720 : Rossmann foldS00543,S00551,S00552,S00553,S00602,S00604,S00605,S00608,S00610,S00625,S00319,S00328,S00329,S00330,S00331,S00332,D00456,D00457,D00458,S00324,S00320,S00325,S00326,S00327,S00335,S00336,S00334,T00219,S00339,D00513,D00001,D00002,D00003,D00005,D00007,D00008,D00010,D00012,D00017,D00018,D00023,D00027,D00028,D00031,D00032,D00033,D00034,D00035,D00037,D00048,D00071,D00476,D00481,D00482,D00490,D00492,D00494,D00545,D00601,D00603,D00604,D00605,D00615,D00845,D00857,D00858,M00161,M00171,M00210,T00002,T00010,T00011,T00015,T00227,T00247,T00408,T00414,D00827,D00262,D00274,D00275,M00035,T00109

Enzyme Name
UniProtKBKEGG

P33160
Protein nameFormate dehydrogenaseformate dehydrogenase
formate-NAD+ oxidoreductase
FDH I
FDH II
N-FDH
formic hydrogen-lyase
formate hydrogenlyase
hydrogenlyase
NAD+-linked formate dehydrogenase
NAD+-dependent formate dehydrogenase
formate dehydrogenase (NAD+)
NAD+-formate dehydrogenase
formate benzyl-viologen oxidoreductase
formic acid dehydrogenase
SynonymsEC 1.2.1.2
NAD-dependent formate dehydrogenase
FDH
PfamPF00389 (2-Hacid_dh)
PF02826 (2-Hacid_dh_C)
[Graphical view]

KEGG pathways
MAP codePathways
MAP00630Glyoxylate and dicarboxylate metabolism
MAP00680Methane metabolism

UniProtKB:Accession NumberP33160
Entry nameFDH_PSESR
ActivityFormate + NAD(+) = CO(2) + NADH.
SubunitHomodimer.
Subcellular location
Cofactor

Compound table: links to PDB-related databases & PoSSuM

SubstratesProductsintermediates
KEGG-idC00058C00003C00011C00004C00080
CompoundFormateNAD+CO2NADHH+
Typecarboxyl groupamide group,amine group,nucleotideothersamide group,amine group,nucleotideothers
ChEBI30751
15846
16526
16908
15378

PubChem284
18971002
5893
280
439153
1038

              
2nacA01UnboundUnboundUnboundUnbound Unbound
2nacB01UnboundUnboundUnboundUnbound Unbound
2nadA01UnboundUnboundUnboundUnbound Transition-state-analogue:AZI
2nadB01UnboundUnboundUnboundUnbound Transition-state-analogue:AZI
2nacA02UnboundUnboundUnboundUnbound Unbound
2nacB02UnboundUnboundUnboundUnbound Unbound
2nadA02UnboundBound:NADUnboundUnbound Unbound
2nadB02UnboundBound:NADUnboundUnbound Unbound

Active-site residues
resource
Swiss-prot;P33160 & literature [11], [12], [14], [21]
pdbCatalytic residues
         
2nacA01 
2nacB01 
2nadA01 
2nadB01 
2nacA02ASN 146;ARG 284;GLN 313;HIS 332
2nacB02ASN 146;ARG 284;GLN 313;HIS 332
2nadA02ASN 146;ARG 284;GLN 313;HIS 332
2nadB02ASN 146;ARG 284;GLN 313;HIS 332

References for Catalytic Mechanism
ReferencesSectionsNo. of steps in catalysis
[8]p.451
[11]

[12]Fig. 2, p.106
[14]Scheme 1, p.475
[21]p.148

references
[1]
PubMed ID7144587
JournalMethods Enzymol
Year1982
Volume89 Pt D
Pages531-7
AuthorsHopner T, Ruschig U, Muller U, Willnow P
TitleFormate dehydrogenase from Pseudomonas oxalaticus.
[2]
PubMed ID6311213
JournalBiochem Biophys Res Commun
Year1983
Volume115
Pages61-7
AuthorsDurfor CN, Wetherbee PJ, Deaton JC, Solomon EI
TitleCharacterization and spectroscopic properties of reduced Mo and W formate dehydrogenase from C. thermoaceticum.
[3]
PubMed ID6309816
JournalJ Biol Chem
Year1983
Volume258
Pages10839-45
AuthorsBarber MJ, Siegel LM, Schauer NL, May HD, Ferry JG
TitleFormate dehydrogenase from Methanobacterium formicicum. Electron paramagnetic resonance spectroscopy of the molybdenum and iron-sulfur centers.
[4]
PubMed ID3038082
JournalBiochem J
Year1987
Volume243
Pages235-9
AuthorsGadsby PM, Greenwood C, Coddington A, Thomson AJ, Godfrey C
TitlePurification and properties of formate dehydrogenase from Pseudomonas aeruginosa. Electron-paramagnetic-resonance studies on the molybdenum centre.
[5]
PubMed ID3038081
JournalBiochem J
Year1987
Volume243
Pages225-33
AuthorsGodfrey C, Coddington A, Greenwood C, Thomson AJ, Gadsby PM
TitlePurification and properties of formate dehydrogenase from Pseudomonas aeruginosa. Characterization of haem and iron-sulphur centres by magnetic-circular-dichroism and electron-paramagnetic-resonance spectroscopy.
[6]
PubMed ID3038083
JournalBiochem J
Year1987
Volume243
Pages241-8
AuthorsGodfrey C, Gadsby PM, Thomson AJ, Greenwood C, Coddington A
TitleElectron-paramagnetic-resonance and magnetic-circular-dichroism studies on the formate dehydrogenase-nitrate reductase particle from Pseudomonas aeruginosa.
[7]
PubMed ID1657982
JournalJ Biol Chem
Year1991
Volume266
Pages21853-63
AuthorsJollie DR, Lipscomb JD
TitleFormate dehydrogenase from Methylosinus trichosporium OB3b. Purification and spectroscopic characterization of the cofactors.
[8]
CommentsX-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS)
Medline ID92283270
PubMed ID1597184
JournalEur J Biochem
Year1992
Volume206
Pages441-52
AuthorsLamzin VS, Aleshin AE, Strokopytov BV, Yukhnevich MG, Popov VO, Harutyunyan EH, Wilson KS
TitleCrystal structure of NAD-dependent formate dehydrogenase.
Related UniProtKBP33160
[9]
CommentsMUTAGENESIS OF CYS-255
Medline ID93249485
PubMed ID8484798
JournalBiochem Biophys Res Commun
Year1993
Volume192
Pages976-81
AuthorsTishkov VI, Galkin AG, Marchenko GN, Egorova OA, Sheluho DV, Kulakova LB, Dementieva LA, Egorov AM
TitleCatalytic properties and stability of a Pseudomonas sp.101 formate dehydrogenase mutants containing Cys-255-Ser and Cys-255-Met replacements.
Related UniProtKBP33160
[10]
PubMed ID8509325
JournalJ Bacteriol
Year1993
Volume175
Pages3703-9
AuthorsChow CM, RajBhandary UL
TitleDevelopmental regulation of the gene for formate dehydrogenase in Neurospora crassa.
[11]
CommentsX-ray crystallography
PubMed ID8114093
JournalJ Mol Biol
Year1994
Volume236
Pages759-85
AuthorsLamzin VS, Dauter Z, Popov VO, Harutyunyan EH, Wilson KS
TitleHigh resolution structures of holo and apo formate dehydrogenase.
Related PDB2nac,2nad
[12]
PubMed ID8706817
JournalFEBS Lett
Year1996
Volume390
Pages104-8
AuthorsTishkov VI, Matorin AD, Rojkova AM, Fedorchuk VV, Savitsky PA, Dementieva LA, Lamzin VS, Mezentzev AV, Popov VO
TitleSite-directed mutagenesis of the formate dehydrogenase active centre: role of the His332-Gln313 pair in enzyme catalysis.
[13]
PubMed ID9020054
JournalBiochem Biophys Res Commun
Year1997
Volume230
Pages30-4
AuthorsDuarte RO, Reis AR, Girio F, Moura I, Moura JJ, Collaco TA
TitleThe formate dehydrogenase isolated from the aerobe Methylobacterium sp. RXM is a molybdenum-containing protein.
[14]
PubMed ID9020883
JournalBiochem J
Year1997
Volume321
Pages475-80
AuthorsMesentsev AV, Lamzin VS, Tishkov VI, Ustinnikova TB, Popov VO
TitleEffect of pH on kinetic parameters of NAD+-dependent formate dehydrogenase.
[15]
PubMed ID9481877
JournalBiochemistry (Mosc)
Year1997
Volume62
Pages1439-43
AuthorsKlyachko NL, Vakula SV, Gladyshev VN, Tishkov VI, Levashov AV
TitleFormate dehydrogenase in a reversed micelle system: regulation of catalytic activity and oligomeric composition of the enzyme.
[16]
PubMed ID10069397
JournalFEBS Lett
Year1999
Volume445
Pages183-8
AuthorsRojkova AM, Galkin AG, Kulakova LB, Serov AE, Savitsky PA, Fedorchuk VV, Tishkov VI
TitleBacterial formate dehydrogenase. Increasing the enzyme thermal stability by hydrophobization of alpha-helices.
[17]
PubMed ID10691964
JournalEur J Biochem
Year2000
Volume267
Pages1280-9
AuthorsSlusarczyk H, Felber S, Kula MR, Pohl M
TitleStabilization of NAD-dependent formate dehydrogenase from Candida boidinii by site-directed mutagenesis of cysteine residues.
[18]
PubMed ID11171126
JournalBiochem J
Year2001
Volume354
Pages455-63
AuthorsLabrou NE, Rigden DJ
TitleActive-site characterization of Candida boidinii formate dehydrogenase.
[19]
PubMed ID12144528
JournalBiochem J
Year2002
Volume367
Pages841-7
AuthorsSerov AE, Popova AS, Fedorchuk VV, Tishkov VI
TitleEngineering of coenzyme specificity of formate dehydrogenase from Saccharomyces cerevisiae.
[20]
PubMed ID12460112
JournalBiochemistry (Mosc)
Year2002
Volume67
Pages1145-51
AuthorsFedorchuk VV, Galkin AG, Yasny IE, Kulakova LB, Rojkova AM, Filippova AA, Tishkov VI
TitleEffect of interactions between amino acid residues 43 and 61 on thermal stability of bacterial formate dehydrogenases.
[21]
PubMed ID11825616
JournalBiochim Biophys Acta
Year2002
Volume1594
Pages136-49
AuthorsGalkin AG, Kutsenko AS, Bajulina NP, Esipova NG, Lamzin VS, Mesentsev AV, Shelukho DV, Tikhonova TV, Tishkov VI, Ustinnikova TB, Popov VO
TitleSite-directed mutagenesis of the essential arginine of the formate dehydrogenase active centre.


createdupdated
2005-01-142009-02-26


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