4GD3
Structure of E. coli hydrogenase-1 in complex with cytochrome b
External Resource: Annotation
- Domain Annotation: ECOD Classification
- Domain Annotation: CATH
- Protein Family Annotation
- Gene Ontology: Gene Product Annotation
- InterPro: Protein Family Classification
- Membrane Protein Annotation: OPM
- Membrane Protein Annotation: PDBTM
- Membrane Protein Annotation: MemProtMD
- Membrane Protein Annotation: mpstruc
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
C [auth T] | Oxidored_q6 | e4gd3T2 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Class I glutamine amidotransferase-like | T: CheY-like | F: Oxidored_q6 | ECOD (1.6) |
C [auth T] | NiFe_hyd_SSU_C | e4gd3T1 | 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: NiFe_hyd_SSU_C | ECOD (1.6) |
C [auth T] | hydA_like | e4gd3T3 | A: extended segments | X: Transmembrane helix of nickel-iron hydrogenase small subunit (From Topology) | H: Transmembrane helix of nickel-iron hydrogenase small subunit (From Topology) | T: Transmembrane helix of nickel-iron hydrogenase small subunit | F: hydA_like | ECOD (1.6) |
A [auth S] | Oxidored_q6 | e4gd3S2 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Class I glutamine amidotransferase-like | T: CheY-like | F: Oxidored_q6 | ECOD (1.6) |
A [auth S] | NiFe_hyd_SSU_C | e4gd3S3 | 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: NiFe_hyd_SSU_C | ECOD (1.6) |
A [auth S] | hydA_like | e4gd3S1 | A: extended segments | X: Transmembrane helix of nickel-iron hydrogenase small subunit (From Topology) | H: Transmembrane helix of nickel-iron hydrogenase small subunit (From Topology) | T: Transmembrane helix of nickel-iron hydrogenase small subunit | F: hydA_like | ECOD (1.6) |
E [auth Q] | Oxidored_q6 | e4gd3Q2 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Class I glutamine amidotransferase-like | T: CheY-like | F: Oxidored_q6 | ECOD (1.6) |
E [auth Q] | NiFe_hyd_SSU_C | e4gd3Q1 | 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: NiFe_hyd_SSU_C | ECOD (1.6) |
E [auth Q] | hydA_like | e4gd3Q3 | A: extended segments | X: Transmembrane helix of nickel-iron hydrogenase small subunit (From Topology) | H: Transmembrane helix of nickel-iron hydrogenase small subunit (From Topology) | T: Transmembrane helix of nickel-iron hydrogenase small subunit | F: hydA_like | ECOD (1.6) |
G [auth R] | Oxidored_q6 | e4gd3R2 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Class I glutamine amidotransferase-like | T: CheY-like | F: Oxidored_q6 | ECOD (1.6) |
G [auth R] | NiFe_hyd_SSU_C | e4gd3R1 | 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: NiFe_hyd_SSU_C | ECOD (1.6) |
G [auth R] | hydA_like | e4gd3R3 | A: extended segments | X: Transmembrane helix of nickel-iron hydrogenase small subunit (From Topology) | H: Transmembrane helix of nickel-iron hydrogenase small subunit (From Topology) | T: Transmembrane helix of nickel-iron hydrogenase small subunit | F: hydA_like | ECOD (1.6) |
B [auth L] | NiFeSe_Hases_2nd | e4gd3L1 | 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: NiFeSe_Hases_2nd | ECOD (1.6) |
B [auth L] | NiFeSe_Hases_1st | e4gd3L4 | 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: NiFeSe_Hases_1st | ECOD (1.6) |
B [auth L] | NiFeSe_Hases_3rd | e4gd3L3 | 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: NiFeSe_Hases_3rd | ECOD (1.6) |
B [auth L] | NiFeSe_Hases_3rd_1 | e4gd3L2 | 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: NiFeSe_Hases_3rd_1 | ECOD (1.6) |
D [auth M] | NiFeSe_Hases_2nd | e4gd3M1 | 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: NiFeSe_Hases_2nd | ECOD (1.6) |
D [auth M] | NiFeSe_Hases_1st | e4gd3M3 | 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: NiFeSe_Hases_1st | ECOD (1.6) |
D [auth M] | NiFeSe_Hases_3rd | e4gd3M2 | 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: NiFeSe_Hases_3rd | ECOD (1.6) |
D [auth M] | NiFeSe_Hases_3rd_1 | e4gd3M4 | 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: NiFeSe_Hases_3rd_1 | ECOD (1.6) |
F [auth J] | NiFeSe_Hases_2nd | e4gd3J4 | 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: NiFeSe_Hases_2nd | ECOD (1.6) |
F [auth J] | NiFeSe_Hases_1st | e4gd3J2 | 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: NiFeSe_Hases_1st | ECOD (1.6) |
F [auth J] | NiFeSe_Hases_3rd | e4gd3J3 | 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: NiFeSe_Hases_3rd | ECOD (1.6) |
F [auth J] | NiFeSe_Hases_3rd_1 | e4gd3J1 | 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: NiFeSe_Hases_3rd_1 | ECOD (1.6) |
H [auth K] | NiFeSe_Hases_2nd | e4gd3K1 | 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: NiFeSe_Hases_2nd | ECOD (1.6) |
H [auth K] | NiFeSe_Hases_1st | e4gd3K3 | 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: NiFeSe_Hases_1st | ECOD (1.6) |
H [auth K] | NiFeSe_Hases_3rd | e4gd3K2 | 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: NiFeSe_Hases_3rd | ECOD (1.6) |
H [auth K] | NiFeSe_Hases_3rd_1 | e4gd3K4 | 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: NiFeSe_Hases_3rd_1 | ECOD (1.6) |
I [auth A] | Ni_hydr_CYTB | e4gd3A1 | A: alpha bundles | X: Transmembrane heme-binding four-helical bundle (From Homology) | H: Transmembrane heme-binding four-helical bundle | T: Transmembrane di-heme cytochromes | F: Ni_hydr_CYTB | ECOD (1.6) |
J [auth B] | Ni_hydr_CYTB | e4gd3B2 | A: alpha bundles | X: Transmembrane heme-binding four-helical bundle (From Homology) | H: Transmembrane heme-binding four-helical bundle | T: Transmembrane di-heme cytochromes | F: Ni_hydr_CYTB | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth S], C [auth T], E [auth Q], G [auth R] | 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], E [auth Q], G [auth R] | PF01058 | NADH ubiquinone oxidoreductase, 20 Kd subunit (Oxidored_q6) | NADH ubiquinone oxidoreductase, 20 Kd subunit | - | Family |
B [auth L], D [auth M], F [auth J], H [auth K] | PF00374 | Nickel-dependent hydrogenase (NiFeSe_Hases) | Nickel-dependent hydrogenase | - | Family |
I [auth A], J [auth B] | PF01292 | Prokaryotic cytochrome b561 (Ni_hydr_CYTB) | Prokaryotic cytochrome b561 | - | Family |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Membrane Protein Annotation: OPM OPM Database Homepage
Chains | External Link | Type | Class | Superfamily | Family |
---|---|---|---|---|---|
OPM | Transmembrane | Alpha-helical polytopic | Electron transport chain complex III (bc1 and b6f) superfamily | Prokaryotic cytochrome b561 |
Membrane Protein Annotation: PDBTM PDBTM Database Homepage
Chains | External Link | Comment |
---|---|---|
PDBTM | Annotated as membrane protein by PDBTM |
Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage
Chains | External Link | Comment |
---|---|---|
MemProtMD | Annotated as membrane protein by MemProtMD |
Membrane Protein Annotation: mpstruc mpstruc Database Homepage
Chains | Resource Link | Group | Subgroup | Protein |
---|---|---|---|---|
mpstruc | TRANSMEMBRANE PROTEINS: ALPHA-HELICAL | Oxidoreductases | O2-tolerant Hydrogenase-1 in complex with cytochrome b |