7BKC

Formate dehydrogenase - heterodisulfide reductase - formylmethanofuran dehydrogenase complex from Methanospirillum hungatei (dimeric, composite structure)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
F [auth D]SCOP2B SuperfamilyFormate dehydrogenase/DMSO reductase domains 1-38105473 3001453 SCOP2B (2022-06-29)
S [auth d]SCOP2B SuperfamilyFormate dehydrogenase/DMSO reductase domains 1-38105473 3001453 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APF12838e7bkcA1 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF12838ECOD (1.6)
APF12831e7bkcA3 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: PF12831ECOD (1.6)
AF_UNCLASSIFIEDe7bkcA2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: F_UNCLASSIFIEDECOD (1.6)
N [auth a]PF12838e7bkca1 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF12838ECOD (1.6)
N [auth a]PF12831e7bkca3 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: PF12831ECOD (1.6)
N [auth a]F_UNCLASSIFIEDe7bkca4 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: FAD/NAD(P)-binding domainF: F_UNCLASSIFIEDECOD (1.6)
JPF01568e7bkcJ1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: PF01568ECOD (1.6)
W [auth j]PF01568e7bkcj1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: double psiF: PF01568ECOD (1.6)
K [auth M]PF00037e7bkcM1 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF00037ECOD (1.6)
L [auth K]PF00037e7bkcK3 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF00037ECOD (1.6)
L [auth K]PF12838e7bkcK1 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF12838ECOD (1.6)
X [auth m]PF00037e7bkcm1 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF00037ECOD (1.6)
Y [auth k]PF00037e7bkck2 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF00037ECOD (1.6)
Y [auth k]PF12838e7bkck1 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF12838ECOD (1.6)
M [auth H]F_UNCLASSIFIEDe7bkcH2 A: a+b two layersX: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)H: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)T: Formate dehydrogenase/DMSO reductase, domain 1F: F_UNCLASSIFIEDECOD (1.6)
M [auth H]F_UNCLASSIFIEDe7bkcH3 A: a/b three-layered sandwichesX: Rossmann-likeH: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)T: Formate dehydrogenase/DMSO reductase, domains 2 and 3F: F_UNCLASSIFIEDECOD (1.6)
M [auth H]PF00384e7bkcH1 A: a/b three-layered sandwichesX: Rossmann-likeH: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)T: Formate dehydrogenase/DMSO reductase, domains 2 and 3F: PF00384ECOD (1.6)
Z [auth h]F_UNCLASSIFIEDe7bkch2 A: a+b two layersX: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)H: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)T: Formate dehydrogenase/DMSO reductase, domain 1F: F_UNCLASSIFIEDECOD (1.6)
Z [auth h]F_UNCLASSIFIEDe7bkch3 A: a/b three-layered sandwichesX: Rossmann-likeH: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)T: Formate dehydrogenase/DMSO reductase, domains 2 and 3F: F_UNCLASSIFIEDECOD (1.6)
Z [auth h]PF00384e7bkch1 A: a/b three-layered sandwichesX: Rossmann-likeH: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)T: Formate dehydrogenase/DMSO reductase, domains 2 and 3F: PF00384ECOD (1.6)
B [auth F]PF02662e7bkcF1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Methyl-viologen reducing hydrogenase subunit D (From Topology)T: Methyl-viologen reducing hydrogenase subunit DF: PF02662ECOD (1.6)
O [auth f]PF02662e7bkcf1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Methyl-viologen reducing hydrogenase subunit D (From Topology)T: Methyl-viologen reducing hydrogenase subunit DF: PF02662ECOD (1.6)
D [auth C]PF13183e7bkcC1 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: PF13183ECOD (1.6)
Q [auth c]PF13183e7bkcc1 A: alpha arraysX: alpha-helical ferredoxin-likeH: alpha-helical ferredoxin (From Topology)T: alpha-helical ferredoxinF: PF13183ECOD (1.6)
E [auth B]PF02754e7bkcB1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: ATC-likeF: PF02754ECOD (1.6)
R [auth b]PF02754e7bkcb1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: ATC-likeF: PF02754ECOD (1.6)
F [auth D]PF04879e7bkcD3 A: a+b two layersX: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)H: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)T: Formate dehydrogenase/DMSO reductase, domain 1F: PF04879ECOD (1.6)
F [auth D]PF00384e7bkcD1 A: a/b three-layered sandwichesX: Rossmann-likeH: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)T: Formate dehydrogenase/DMSO reductase, domains 2 and 3F: PF00384ECOD (1.6)
S [auth d]PF04879e7bkcd3 A: a+b two layersX: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)H: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)T: Formate dehydrogenase/DMSO reductase, domain 1F: PF04879ECOD (1.6)
S [auth d]PF00384e7bkcd1 A: a/b three-layered sandwichesX: Rossmann-likeH: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)T: Formate dehydrogenase/DMSO reductase, domains 2 and 3F: PF00384ECOD (1.6)
G [auth I]PF01493e7bkcI1 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Alpha subunit of glutamate synthase-C (From Topology)T: Alpha subunit of glutamate synthase-CF: PF01493ECOD (1.6)
T [auth i]PF01493e7bkci1 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Alpha subunit of glutamate synthase-C (From Topology)T: Alpha subunit of glutamate synthase-CF: PF01493ECOD (1.6)
H [auth L]PF00037e7bkcL1 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF00037ECOD (1.6)
U [auth l]PF00037e7bkcl1 A: a+b two layersX: 4Fe-4S ferredoxin (From Topology)H: 4Fe-4S ferredoxin (From Topology)T: 4Fe-4S ferredoxinF: PF00037ECOD (1.6)
I [auth G]F_UNCLASSIFIEDe7bkcG2 A: beta sandwichesX: Composite domain of metallo-dependent hydrolases (From Topology)H: Composite domain of metallo-dependent hydrolases (From Topology)T: Composite domain of metallo-dependent hydrolasesF: F_UNCLASSIFIEDECOD (1.6)
I [auth G]PF07969e7bkcG1 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: PF07969ECOD (1.6)
V [auth g]F_UNCLASSIFIEDe7bkcg2 A: beta sandwichesX: Composite domain of metallo-dependent hydrolases (From Topology)H: Composite domain of metallo-dependent hydrolases (From Topology)T: Composite domain of metallo-dependent hydrolasesF: F_UNCLASSIFIEDECOD (1.6)
V [auth g]PF07969e7bkcg1 A: a/b barrelsX: TIM beta/alpha-barrelH: TIM barrels (From Topology)T: TIM barrelsF: PF07969ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A,
N [auth a]
PF12831FAD dependent oxidoreductase (FAD_oxidored)FAD dependent oxidoreductase- Family
A,
N [auth a]
PF128384Fe-4S dicluster domain (Fer4_7)4Fe-4S dicluster domainSuperfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contai ...Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.
Domain
J,
W [auth j]
PF01568Molydopterin dinucleotide binding domain (Molydop_binding)Molydopterin dinucleotide binding domainThis domain is found in various molybdopterin - containing oxidoreductases and tungsten formylmethanofuran dehydrogenase subunit d (FwdD) and molybdenum formylmethanofuran dehydrogenase subunit (FmdD); where the domain constitutes almost the entir ...This domain is found in various molybdopterin - containing oxidoreductases and tungsten formylmethanofuran dehydrogenase subunit d (FwdD) and molybdenum formylmethanofuran dehydrogenase subunit (FmdD); where the domain constitutes almost the entire subunit. The formylmethanofuran dehydrogenase catalyses the first step in methane formation from CO2 in methanogenic archaea and has a molybdopterin dinucleotide cofactor [1]. This domain corresponds to the C-terminal domain IV in dimethyl sulfoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [2].
Domain
K [auth M],
L [auth K],
X [auth m],
Y [auth k]
PF128384Fe-4S dicluster domain (Fer4_7)4Fe-4S dicluster domainSuperfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contai ...Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.
Domain
M [auth H],
Z [auth h]
PF00384Molybdopterin oxidoreductase (Molybdopterin)Molybdopterin oxidoreductase- Family
B [auth F],
O [auth f]
PF02662Methyl-viologen-reducing hydrogenase, delta subunit (FlpD)Methyl-viologen-reducing hydrogenase, delta subunit- Family
C [auth E],
P [auth e]
PF04422Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term (FrhB_FdhB_N)Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term- Family
C [auth E],
P [auth e]
PF04432Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus (FrhB_FdhB_C)Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminusCoenzyme F420 hydrogenase (EC:1.12.99.1) reduces the low-potential two-electron acceptor coenzyme F420. This family contains the C termini of F420 hydrogenase and dehydrogenase beta subunits [1], [2]. The N terminus of Methanobacterium formicicum fo ...Coenzyme F420 hydrogenase (EC:1.12.99.1) reduces the low-potential two-electron acceptor coenzyme F420. This family contains the C termini of F420 hydrogenase and dehydrogenase beta subunits [1], [2]. The N terminus of Methanobacterium formicicum formate dehydrogenase beta chain (EC:1.2.1.2, Swiss:P06130) is also a member of this family [3]. This region is often found in association with the 4Fe-4S binding domain, fer4 (Pfam:PF00037).
Domain
D [auth C],
Q [auth c]
PF131834Fe-4S dicluster domain (Fer4_8)4Fe-4S dicluster domainSuperfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contai ...Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.
Domain
E [auth B],
R [auth b]
PF02754Cysteine-rich domain (CCG)Cysteine-rich domain- Family
F [auth D],
S [auth d]
PF04879Molybdopterin oxidoreductase Fe4S4 domain (Molybdop_Fe4S4)Molybdopterin oxidoreductase Fe4S4 domainThis domain is found in formate dehydrogenase H for which the structure is known. This first domain (residues 1 to 60) of PDB:1aa6 is an Fe4S4 cluster just below the protein surface [1].Domain
F [auth D],
S [auth d]
PF00384Molybdopterin oxidoreductase (Molybdopterin)Molybdopterin oxidoreductase- Family
G [auth I],
T [auth i]
PF01493GXGXG motif (GXGXG)GXGXG motif- Family
H [auth L],
U [auth l]
PF128384Fe-4S dicluster domain (Fer4_7)4Fe-4S dicluster domainSuperfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contai ...Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.
Domain
I [auth G],
V [auth g]
PF07969Amidohydrolase family (Amidohydro_3)Amidohydrolase family- Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A,
N [auth a]
CoB--CoM heterodisulfide reductase iron-sulfur subunit A - -
J,
W [auth j]
Formylmethanofuran dehydrogenase, subunit D - -
K [auth M],
L [auth K],
X [auth m],
Y [auth k]
Formylmethanofuran dehydrogenase, subunit F - -
M [auth H],
Z [auth h]
Formylmethanofuran dehydrogenase, subunit B -
B [auth F],
O [auth f]
F420-non-reducing hydrogenase subunit D- - -
C [auth E],
P [auth e]
Formate dehydrogenase, beta subunit (F420) - -
D [auth C],
Q [auth c]
CoB--CoM heterodisulfide reductase subunit C -
E [auth B],
R [auth b]
CoB--CoM heterodisulfide reductase subunit B -
F [auth D],
S [auth d]
Formate dehydrogenase -
G [auth I],
T [auth i]
Formylmethanofuran dehydrogenase -
H [auth L],
U [auth l]
Formylmethanofuran dehydrogenase, subunit G - -
I [auth G],
V [auth g]
Formylmethanofuran dehydrogenase, subunit A - -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A,
N [auth a]
IPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved siteConserved Site
A,
N [auth a]
IPR039650H(2):CoB-CoM heterodisulfide,ferredoxin reductase subunit A-likeFamily
A,
N [auth a]
IPR0178964Fe-4S ferredoxin-type, iron-sulphur binding domainDomain
A,
N [auth a]
IPR036188FAD/NAD(P)-binding domain superfamilyHomologous Superfamily
J,
W [auth j]
IPR006657Molybdopterin dinucleotide-binding domainDomain
J,
W [auth j]
IPR009010Aspartate decarboxylase-like domain superfamilyHomologous Superfamily
K [auth M],
L [auth K],
X [auth m],
Y [auth k]
IPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved siteConserved Site
K [auth M],
L [auth K],
X [auth m],
Y [auth k]
IPR0178964Fe-4S ferredoxin-type, iron-sulphur binding domainDomain
K [auth M],
L [auth K],
X [auth m],
Y [auth k]
IPR043256Polyferredoxin MvhB-likeFamily
M [auth H],
Z [auth h]
IPR006656Molybdopterin oxidoreductaseDomain
M [auth H],
Z [auth h]
IPR016457Formylmethanofuran dehydrogenase, subunit BFamily
B [auth F],
O [auth f]
IPR003813F420-non-reducing hydrogenase iron-sulfur subunit DDomain
C [auth E],
P [auth e]
IPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved siteConserved Site
C [auth E],
P [auth e]
IPR045220Oxidoreductase FRHB/FDHB/HCAR-likeFamily
C [auth E],
P [auth e]
IPR007516Coenzyme F420 hydrogenase/dehydrogenase beta subunit, N-terminalDomain
C [auth E],
P [auth e]
IPR0178964Fe-4S ferredoxin-type, iron-sulphur binding domainDomain
C [auth E],
P [auth e]
IPR007525Coenzyme F420 hydrogenase/dehydrogenase beta subunit, C-terminalDomain
D [auth C],
Q [auth c]
IPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved siteConserved Site
D [auth C],
Q [auth c]
IPR0178964Fe-4S ferredoxin-type, iron-sulphur binding domainDomain
D [auth C],
Q [auth c]
IPR017680CoB--CoM heterodisulphide reductase, subunit CFamily
D [auth C],
Q [auth c]
IPR009051Alpha-helical ferredoxinHomologous Superfamily
E [auth B],
R [auth b]
IPR004017Cysteine-rich domainDomain
E [auth B],
R [auth b]
IPR017678CoB--CoM heterodisulphide reductase, subunit BFamily
F [auth D],
S [auth d]
IPR006963Molybdopterin oxidoreductase, 4Fe-4S domainDomain
F [auth D],
S [auth d]
IPR006657Molybdopterin dinucleotide-binding domainDomain
F [auth D],
S [auth d]
IPR006656Molybdopterin oxidoreductaseDomain
F [auth D],
S [auth d]
IPR009010Aspartate decarboxylase-like domain superfamilyHomologous Superfamily
F [auth D],
S [auth d]
IPR006655Molybdopterin oxidoreductase, prokaryotic, conserved siteConserved Site
F [auth D],
S [auth d]
IPR041924Formate dehydrogenase H, N-terminalDomain
F [auth D],
S [auth d]
IPR027467Molybdopterin oxidoreductase, molybdopterin cofactor binding siteBinding Site
F [auth D],
S [auth d]
IPR006478Formate dehydrogenase, alpha subunitFamily
G [auth I],
T [auth i]
IPR036485Glutamate synthase, alpha subunit, C-terminal domain superfamilyHomologous Superfamily
G [auth I],
T [auth i]
IPR002489Glutamate synthase, alpha subunit, C-terminalDomain
G [auth I],
T [auth i]
IPR017550Formylmethanofuran dehydrogenase subunit CDomain
H [auth L],
U [auth l]
IPR0179004Fe-4S ferredoxin, iron-sulphur binding, conserved siteConserved Site
H [auth L],
U [auth l]
IPR0178964Fe-4S ferredoxin-type, iron-sulphur binding domainDomain
I [auth G],
V [auth g]
IPR012027Formylmethanofuran dehydrogenase, subunit AFamily
I [auth G],
V [auth g]
IPR013108Amidohydrolase 3Domain
I [auth G],
V [auth g]
IPR011059Metal-dependent hydrolase, composite domain superfamilyHomologous Superfamily
I [auth G],
V [auth g]
IPR032466Metal-dependent hydrolaseHomologous Superfamily