3DAG
The crystal structure of [Fe]-hydrogenase holoenzyme (HMD) from METHANOCALDOCOCCUS JANNASCHII
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | d3daga2 | All alpha proteins | 6-phosphogluconate dehydrogenase C-terminal domain-like | 6-phosphogluconate dehydrogenase C-terminal domain-like | HMD dimerization domain-like | 5,10-methenyltetrahydromethanopterin hydrogenase, HMD | Methanococcus jannaschii (Methanocaldococcus jannaschii ) [TaxId: 2190 ], | SCOPe (2.08) |
A | d3daga1 | Alpha and beta proteins (a/b) | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 6-phosphogluconate dehydrogenase-like, N-terminal domain | 5,10-methenyltetrahydromethanopterin hydrogenase, HMD | Methanococcus jannaschii (Methanocaldococcus jannaschii ) [TaxId: 2190 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | HMD | e3dagA1 | A: alpha arrays | X: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology) | H: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology) | T: 6-phosphogluconate dehydrogenase C-terminal domain-like | F: HMD | ECOD (1.6) |
A | PRK00961 | e3dagA2 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: NAD(P)-binding Rossmann-fold domains | F: PRK00961 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 3.40.50.720 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | NAD(P)-binding Rossmann-like Domain | CATH (4.3.0) |
A | 1.20.120.1300 | Mainly Alpha | Up-down Bundle | Four Helix Bundle (Hemerythrin (Met), subunit A) | Hmd, C-terminal helical subdomain | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF03201 | H2-forming N5,N10-methylene-tetrahydromethanopterin dehydrogenase (HMD) | H2-forming N5,N10-methylene-tetrahydromethanopterin dehydrogenase | - | Family | |
PF22616 | HMD N-terminal domain (HMD_N) | HMD N-terminal domain | This entry represents the N-terminal domain of 5,10-methenyltetrahydromethanopterin hydrogenase (HMD) and related proteins, an enzyme of the methanogenic energy metabolism [1-5]. HMD is an iron-sulphur-cluster-free enzyme that contains an intrinsic C ... | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR038182 | HMD, C-terminal domain superfamily | Homologous Superfamily | |
IPR024190 | Methenyltetrahydromethanopterin dehydrogenase, Hmd-type | Family | |
IPR036291 | NAD(P)-binding domain superfamily | Homologous Superfamily | |
IPR004889 | H2-forming N5,N10-methylenetetrahydromethanopterin dehydrogenase, C-terminal | Domain | |
IPR008927 | 6-phosphogluconate dehydrogenase-like, C-terminal domain superfamily | Homologous Superfamily | |
IPR010062 | 5,10-methenyltetrahydromethanopterin hydrogenase | Family |