4KO3
Low X-ray dose structure of anaerobically purified Dm. baculatum [NiFeSe]-hydrogenase after crystallization under air
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth S] | d4ko3s_ | Multi-domain proteins (alpha and beta) | HydA/Nqo6-like | HydA/Nqo6-like | Nickel-iron hydrogenase, small subunit | automated matches | (Desulfomicrobium baculatum ) [TaxId: 899 ], | SCOPe (2.08) |
C [auth T] | d4ko3t_ | Multi-domain proteins (alpha and beta) | HydA/Nqo6-like | HydA/Nqo6-like | Nickel-iron hydrogenase, small subunit | automated matches | (Desulfomicrobium baculatum ) [TaxId: 899 ], | SCOPe (2.08) |
B [auth L] | d4ko3l_ | Multi-domain proteins (alpha and beta) | HydB/Nqo4-like | HydB/Nqo4-like | Nickel-iron hydrogenase, large subunit | automated matches | (Desulfomicrobium baculatum DSM 4028 ) [TaxId: 525897 ], | SCOPe (2.08) |
D [auth M] | d4ko3m_ | Multi-domain proteins (alpha and beta) | HydB/Nqo4-like | HydB/Nqo4-like | Nickel-iron hydrogenase, large subunit | automated matches | (Desulfomicrobium baculatum DSM 4028 ) [TaxId: 525897 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A [auth S] | SCOP2B Superfamily | Nqo6/HydA N-terminal domain-like | 8054421 | 3002291 | SCOP2B (2022-06-29) |
A [auth S] | SCOP2B Superfamily | HydA C-terminal domain-like | 8037590 | 3001861 | SCOP2B (2022-06-29) |
C [auth T] | SCOP2B Superfamily | HydA C-terminal domain-like | 8037590 | 3001861 | SCOP2B (2022-06-29) |
C [auth T] | SCOP2B Superfamily | Nqo6/HydA N-terminal domain-like | 8054421 | 3002291 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth S] | PF01058 | e4ko3S1 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Class I glutamine amidotransferase-like | T: CheY-like | F: PF01058 | ECOD (1.6) |
A [auth S] | PF14720 | e4ko3S2 | A: few secondary structure elements | X: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit (From Topology) | H: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit (From Topology) | T: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit | F: PF14720 | ECOD (1.6) |
C [auth T] | PF01058 | e4ko3T1 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Class I glutamine amidotransferase-like | T: CheY-like | F: PF01058 | ECOD (1.6) |
C [auth T] | PF14720 | e4ko3T2 | A: few secondary structure elements | X: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit (From Topology) | H: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit (From Topology) | T: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunit | F: PF14720 | ECOD (1.6) |
B [auth L] | PF00374 | e4ko3L1 | A: beta meanders | X: all-beta domain in nickel-iron hydrogenase large subunit (From Topology) | H: all-beta domain in nickel-iron hydrogenase large subunit (From Topology) | T: all-beta domain in nickel-iron hydrogenase large subunit | F: PF00374 | ECOD (1.6) |
B [auth L] | PF00374 | e4ko3L2 | A: alpha complex topology | X: alpha-helical domain in nickel-iron hydrogenase, large subunit (From Topology) | H: alpha-helical domain in nickel-iron hydrogenase, large subunit (From Topology) | T: alpha-helical domain in nickel-iron hydrogenase, large subunit | F: PF00374 | ECOD (1.6) |
B [auth L] | PF00374 | e4ko3L3 | A: a+b two layers | X: FAD-linked reductases, C-terminal domain-like | H: Ni-Fe binding domain in nickel-iron hydrogenase large subunit (From Topology) | T: Ni-Fe binding domain in nickel-iron hydrogenase large subunit | F: PF00374 | ECOD (1.6) |
D [auth M] | PF00374 | e4ko3M1 | A: beta meanders | X: all-beta domain in nickel-iron hydrogenase large subunit (From Topology) | H: all-beta domain in nickel-iron hydrogenase large subunit (From Topology) | T: all-beta domain in nickel-iron hydrogenase large subunit | F: PF00374 | ECOD (1.6) |
D [auth M] | PF00374 | e4ko3M2 | A: alpha complex topology | X: alpha-helical domain in nickel-iron hydrogenase, large subunit (From Topology) | H: alpha-helical domain in nickel-iron hydrogenase, large subunit (From Topology) | T: alpha-helical domain in nickel-iron hydrogenase, large subunit | F: PF00374 | ECOD (1.6) |
D [auth M] | PF00374 | e4ko3M3 | A: a+b two layers | X: FAD-linked reductases, C-terminal domain-like | H: Ni-Fe binding domain in nickel-iron hydrogenase large subunit (From Topology) | T: Ni-Fe binding domain in nickel-iron hydrogenase large subunit | F: PF00374 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A [auth S] | 3.40.50.700 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | NADH:ubiquinone oxidoreductase-like, 20kDa subunit | CATH (4.3.0) |
A [auth S] | 4.10.480.10 | Few Secondary Structures | Irregular | Cytochrome-c3 Hydrogenase | Chain A, domain 2 | CATH (4.3.0) |
C [auth T] | 3.40.50.700 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | NADH:ubiquinone oxidoreductase-like, 20kDa subunit | CATH (4.3.0) |
C [auth T] | 4.10.480.10 | Few Secondary Structures | Irregular | Cytochrome-c3 Hydrogenase | Chain A, domain 2 | CATH (4.3.0) |
B [auth L] | 1.10.645.10 | Mainly Alpha | Orthogonal Bundle | Cytochrome-c3 Hydrogenase | chain B | CATH (4.3.0) |
D [auth M] | 1.10.645.10 | Mainly Alpha | Orthogonal Bundle | Cytochrome-c3 Hydrogenase | chain B | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth S], C [auth T] | PF14720 | NiFe/NiFeSe hydrogenase small subunit C-terminal (NiFe_hyd_SSU_C) | NiFe/NiFeSe hydrogenase small subunit C-terminal | - | Family |
A [auth S], C [auth T] | PF01058 | NADH ubiquinone oxidoreductase, 20 Kd subunit (Oxidored_q6) | NADH ubiquinone oxidoreductase, 20 Kd subunit | - | Family |
B [auth L], D [auth M] | PF00374 | Nickel-dependent hydrogenase (NiFeSe_Hases) | Nickel-dependent hydrogenase | - | Family |