6L7P
cryo-EM structure of cyanobacteria NDH-1LdelV complex
External Resource: Annotation
- Domain Annotation: SCOP2 Classification
- 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: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
R [auth S] | SCOP2B Superfamily | Electron transport accessory proteins | 8103000 | 3000325 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | NADH-quinone oxidoreductase, subunit 11-like | 8106707 | 3002200 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Antiporter subunits half-channel-like | 8059300 | 3002280 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | Antiporter subunits half-channel-like | 8093348 | 3002280 | SCOP2B (2022-06-29) |
E | SCOP2B Superfamily | NADH-quinone oxidoreductase, subunit 11-like | 8060883 | 3002200 | SCOP2B (2022-06-29) |
F | SCOP2B Superfamily | Antiporter subunits half-channel-like | 8093351 | 3002280 | SCOP2B (2022-06-29) |
F | SCOP2B Superfamily | Antiporter subunits half-channel-like | 8059304 | 3002280 | SCOP2B (2022-06-29) |
H | SCOP2B Superfamily | HydB/Nqo4-like | 8085741 | 3001849 | 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 | NADHdh | e6l7pA1 | A: alpha complex topology | X: Sodium/proton antiporter subunits-like (From Homology) | H: Sodium/proton antiporter subunits-like | T: NADH-quinone oxidoreductase subunit 8 (Nqo8)-related | F: NADHdh | ECOD (1.6) |
J | Complex1_30kDa | e6l7pJ1 | A: a+b two layers | X: Nqo5-like | H: Nqo5-like (From Topology) | T: Nqo5-like | F: Complex1_30kDa | ECOD (1.6) |
O | UNK_F_TYPE | e6l7pO1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: UNK_F_TYPE | ECOD (1.6) |
R [auth S] | NdhS | e6l7pS1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: NdhS | ECOD (1.6) |
B | Proton_antipo_M | e6l7pB1 | A: alpha complex topology | X: Sodium/proton antiporter subunits-like (From Homology) | H: Sodium/proton antiporter subunits-like | T: NADH-quinone oxidoreductase subunit L (NuoL)-related | F: Proton_antipo_M | ECOD (1.6) |
C | Oxidored_q4 | e6l7pC1 | A: extended segments | X: NADH-quinone oxidoreductase subunit A (From Topology) | H: NADH-quinone oxidoreductase subunit A (From Topology) | T: NADH-quinone oxidoreductase subunit A | F: Oxidored_q4 | ECOD (1.6) |
D | Proton_antipo_M | e6l7pD1 | A: alpha complex topology | X: Sodium/proton antiporter subunits-like (From Homology) | H: Sodium/proton antiporter subunits-like | T: NADH-quinone oxidoreductase subunit L (NuoL)-related | F: Proton_antipo_M | ECOD (1.6) |
E | Oxidored_q2 | e6l7pE1 | A: alpha complex topology | X: NADH-quinone oxidoreductase subunit K (From Topology) | H: NADH-quinone oxidoreductase subunit K (From Topology) | T: NADH-quinone oxidoreductase subunit K | F: Oxidored_q2 | ECOD (1.6) |
F | Proton_antipo_M | e6l7pF1 | A: alpha complex topology | X: Sodium/proton antiporter subunits-like (From Homology) | H: Sodium/proton antiporter subunits-like | T: NADH-quinone oxidoreductase subunit L (NuoL)-related | F: Proton_antipo_M | ECOD (1.6) |
G | Oxidored_q3 | e6l7pG1 | A: extended segments | X: NADH-quinone oxidoreductase subunit J (From Topology) | H: NADH-quinone oxidoreductase subunit J (From Topology) | T: NADH-quinone oxidoreductase subunit J | F: Oxidored_q3 | ECOD (1.6) |
H | Complex1_49kDa_1st | e6l7pH3 | 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: Complex1_49kDa_1st | ECOD (1.6) |
H | NuoD | e6l7pH1 | 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: NuoD | ECOD (1.6) |
H | Complex1_49kDa_2nd | e6l7pH2 | 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: Complex1_49kDa_2nd | ECOD (1.6) |
I | Fer4_21_1 | e6l7pI1 | A: a+b two layers | X: 4Fe-4S ferredoxin (From Topology) | H: 4Fe-4S ferredoxin (From Topology) | T: 4Fe-4S ferredoxin | F: Fer4_21_1 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
R [auth S] | 2.30.30.140 | Mainly Beta | Roll | SH3 type barrels. | CATH (utative) | |
E | 1.10.287.3510 | Mainly Alpha | Orthogonal Bundle | Helix Hairpins | CATH (utative) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF00146 | NADH dehydrogenase (NADHdh) | NADH dehydrogenase | - | Family | |
PF00329 | Respiratory-chain NADH dehydrogenase, 30 Kd subunit (Complex1_30kDa) | Respiratory-chain NADH dehydrogenase, 30 Kd subunit | - | Family | |
PF01058 | NADH ubiquinone oxidoreductase, 20 Kd subunit (Oxidored_q6) | NADH ubiquinone oxidoreductase, 20 Kd subunit | - | Family | |
PF10664 | Cyanobacterial and plastid NDH-1 subunit M (NdhM) | Cyanobacterial and plastid NDH-1 subunit M | - | Family | |
PF11910 | Cyanobacterial and plant NDH-1 subunit O (NdhO) | Cyanobacterial and plant NDH-1 subunit O | - | Family | |
R [auth S] | PF11623 | NAD(P)H dehydrogenase subunit S (NdhS) | NAD(P)H dehydrogenase subunit S | - | Family |
PF19530 | NAD(P)H-quinone oxidoreductase subunit 2 N-terminal (Ndh2_N) | NAD(P)H-quinone oxidoreductase subunit 2 N-terminal | This domain represents the N-terminal of NAD(P)H-quinone oxidoreductase subunit 2 (or subunit B), part of the P-module (pumping) of the photosynthetic complex I from plants and cyanobacteria, which is structurally and functionally related to the resp ... | Domain | |
PF00361 | Proton-conducting membrane transporter (Proton_antipo_M) | Proton-conducting membrane transporter | - | Family | |
PF00507 | NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 (Oxidored_q4) | NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 | - | Family | |
PF00361 | Proton-conducting membrane transporter (Proton_antipo_M) | Proton-conducting membrane transporter | - | Family | |
PF00420 | NADH-ubiquinone/plastoquinone oxidoreductase chain 4L (Oxidored_q2) | NADH-ubiquinone/plastoquinone oxidoreductase chain 4L | - | Family | |
PF00361 | Proton-conducting membrane transporter (Proton_antipo_M) | Proton-conducting membrane transporter | - | Family | |
PF01010 | NADH-dehyrogenase subunit F, TMs, (complex I) C-terminus (Proton_antipo_C) | NADH-dehyrogenase subunit F, TMs, (complex I) C-terminus | - | Family | |
PF00662 | NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus (Proton_antipo_N) | NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus | - | Family | |
PF00499 | NADH-ubiquinone/plastoquinone oxidoreductase chain 6 (Oxidored_q3) | NADH-ubiquinone/plastoquinone oxidoreductase chain 6 | - | Family | |
PF00346 | Respiratory-chain NADH dehydrogenase, 49 Kd subunit (Complex1_49kDa) | Respiratory-chain NADH dehydrogenase, 49 Kd subunit | - | Family | |
PF12838 | 4Fe-4S dicluster domain (Fer4_7) | 4Fe-4S dicluster domain | 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 contai ... | Domain |
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 I (NADH dehydrogenase) and supercomplexes | H+ or Na+ translocating NADH dehydrogenase |
Membrane Protein Annotation: PDBTM PDBTM Database Homepage
Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage
Membrane Protein Annotation: mpstruc mpstruc Database Homepage
Chains | Resource Link | Group | Subgroup | Protein |
---|---|---|---|---|
mpstruc | TRANSMEMBRANE PROTEINS: ALPHA-HELICAL | Electron Transport Chain Complexes: Complex I | ferredoxin (FD)-NDH-1L complex |