Cryo-EM structure of respiratory complex I from Yarrowia lipolytica
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
| Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
|---|---|---|---|---|---|
| H | SCOP2 Family | NQO2-like | 8085744 | 4002945 | SCOP2 (2022-06-29) |
| H | SCOP2 Superfamily | Thioredoxin-like | 8085745 | 3000031 | SCOP2 (2022-06-29) |
| NA [auth 6] | SCOP2B Superfamily | NADH-quinone oxidoreductase, subunit 11-like | 8053517 | 3002200 | SCOP2B (2022-06-29) |
| LA [auth 4] | SCOP2 Family | ND4 antiporter-like subunits | 8071761 | 4005749 | SCOP2 (2022-06-29) |
| LA [auth 4] | SCOP2 Superfamily | Antiporter subunits half-channel-like | 8093347 | 3002280 | SCOP2 (2022-06-29) |
| LA [auth 4] | SCOP2 Superfamily | Antiporter subunits half-channel-like | 8071762 | 3002280 | SCOP2 (2022-06-29) |
| KA [auth 3] | SCOP2B Superfamily | NADH-quinone oxidoreductase, subunit 11-like | 8106708 | 3002200 | SCOP2B (2022-06-29) |
| IA [auth 1] | SCOP2B Superfamily | Antiporter subunits half-channel-like | 8067553 | 3002280 | SCOP2B (2022-06-29) |
| C | SCOP2B Superfamily | HydB/Nqo4-like | 8085739 | 3001849 | SCOP2B (2022-06-29) |
| CA [auth f] | SCOP2B Superfamily | Thioredoxin-like | 8096526 | 3000031 | SCOP2B (2022-06-29) |
| V [auth Y] | SCOP2B Superfamily | NADH-ubiquinone oxidoreductase-like | 8099784 | 3002258 | SCOP2B (2022-06-29) |
| P [auth Q] | SCOP2B Superfamily | ACP-like | 8099778 | 3001805 | SCOP2B (2022-06-29) |
| N [auth O] | SCOP2B Superfamily | ACP-like | 8099780 | 3001805 | SCOP2B (2022-06-29) |
| L | SCOP2B Superfamily | NADH-quinone oxidoreductase, subunit 11-like | 8053510 | 3002200 | SCOP2B (2022-06-29) |
| K | SCOP2B Superfamily | Nqo6/HydA N-terminal domain-like | 8085725 | 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) |
|---|---|---|---|---|---|---|---|---|
| I | e6gcsI1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| H | e6gcsH1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| F | e6gcsF1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| E | e6gcsE1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| D | e6gcsD1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| MA [auth 5] | e6gcs51 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| LA [auth 4] | e6gcs41 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| JA [auth 2] | e6gcs21 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| IA [auth 1] | e6gcs11 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| EA [auth h] | e6gcsh1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| CA [auth f] | e6gcsf1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| V [auth Y] | e6gcsY1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| T [auth W] | e6gcsW1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| B | e6gcsB1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| S [auth U] | e6gcsU1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| Q [auth R] | e6gcsR1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| P [auth Q] | e6gcsQ1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| O [auth P] | e6gcsP1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| N [auth O] | e6gcsO1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| M | e6gcsM1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| L | e6gcsL1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| K | e6gcsK1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) | |
| A | e6gcsA1 | A: L-aspartase middle domain-like | X: gp11/gp12 receptor-binding domain | H: gp11/gp12 receptor-binding domain | T: Glycos_transf_2,Glyco_transf_7C | F: | ECOD (20:10:01) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| PF05071 | NADH ubiquinone oxidoreductase subunit NDUFA12 (NDUFA12) | NADH ubiquinone oxidoreductase subunit NDUFA12 | - | Family | |
| PF04716 | ETC complex I subunit conserved region (ETC_C1_NDUFA5) | ETC complex I subunit conserved region | - | Family | |
| PF05047 | Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain (L51_S25_CI-B8) | Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain | The proteins in this family are located in the mitochondrion. The family includes ribosomal protein L51, and S25. This family also includes mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) EC:1.6.5.3. It is not known whether all member ... | Domain | |
| PF01370 | NAD dependent epimerase/dehydratase family (Epimerase) | NAD dependent epimerase/dehydratase family | - | Family | |
| PA [auth 9] | PF10200 | NADH:ubiquinone oxidoreductase, NDUFS5-15kDa (Ndufs5) | NADH:ubiquinone oxidoreductase, NDUFS5-15kDa | - | Family |
| OA [auth 8] | PF05676 | NADH-ubiquinone oxidoreductase B18 subunit (NDUFB7) (NDUF_B7) | NADH-ubiquinone oxidoreductase B18 subunit (NDUFB7) | - | Family |
| NA [auth 6] | PF00499 | NADH-ubiquinone/plastoquinone oxidoreductase chain 6 (Oxidored_q3) | NADH-ubiquinone/plastoquinone oxidoreductase chain 6 | - | Family |
| PF15879 | NADH-ubiquinone oxidoreductase MWFE subunit (MWFE) | NADH-ubiquinone oxidoreductase MWFE subunit | - | Family | |
| MA [auth 5] | PF00361 | NADH:quinone oxidoreductase/Mrp antiporter, TM (Proton_antipo_M) | NADH:quinone oxidoreductase/Mrp antiporter, TM | This entry includes membrane transporters and represents some 7 of potentially 14-16 TM regions. In many instances, its members forms part of complex I that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associa ... | Domain |
| MA [auth 5] | PF00662 | NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus (Proton_antipo_N) | NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus | This entry represents an amino terminal extension of Pfam:PF00361. Only NADH-Ubiquinone chain 5 and eubacterial chain L are in this family. This sub-family is part of complex I which catalyses the transfer of two electrons from NADH to ubiquinone in ... | Domain |
| LA [auth 4] | PF00361 | NADH:quinone oxidoreductase/Mrp antiporter, TM (Proton_antipo_M) | NADH:quinone oxidoreductase/Mrp antiporter, TM | This entry includes membrane transporters and represents some 7 of potentially 14-16 TM regions. In many instances, its members forms part of complex I that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associa ... | Domain |
| KA [auth 3] | PF00507 | NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 (Oxidored_q4) | NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 | - | Family |
| JA [auth 2] | PF00361 | NADH:quinone oxidoreductase/Mrp antiporter, TM (Proton_antipo_M) | NADH:quinone oxidoreductase/Mrp antiporter, TM | This entry includes membrane transporters and represents some 7 of potentially 14-16 TM regions. In many instances, its members forms part of complex I that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associa ... | Domain |
| IA [auth 1] | PF00146 | NADH dehydrogenase (NADHdh) | NADH dehydrogenase | - | Family |
| V [auth Y] | PF04800 | NADH dehydrogenase ubiquinone Fe-S protein 4 (NDUS4) | NADH dehydrogenase ubiquinone Fe-S protein 4 | - | Family |
| U [auth X] | PF12853 | C-terminal of NADH-ubiquinone oxidoreductase 21 kDa subunit (NADH_u_ox_C) | C-terminal of NADH-ubiquinone oxidoreductase 21 kDa subunit | This family is the C-terminal domain of NADH-ubiquinone oxidoreductase 21 kDa subunits from fungi. | Domain |
| U [auth X] | PF10785 | NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit (NADH-u_ox-rdase) | NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit | This family is the N-terminal domain of NADH-ubiquinone oxidoreductase 21 kDa subunits from fungi, lower metazoa and plants. | Domain |
| S [auth U] | PF06747 | CHCH domain (CHCH) | CHCH domain | we have identified a conserved motif in the LOC118487 protein that we have called the CHCH motif. Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extende ... | Domain |
| P [auth Q] | PF00550 | Phosphopantetheine attachment site (PP-binding) | Phosphopantetheine attachment site | A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes memb ... | Domain |
| O [auth P] | PF13233 | Complex1_LYR-like (Complex1_LYR_2) | Complex1_LYR-like | - | Family |
| N [auth O] | PF00550 | Phosphopantetheine attachment site (PP-binding) | Phosphopantetheine attachment site | A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes memb ... | Domain |
| PF10276 | Zinc-finger domain (zf-CHCC) | Zinc-finger domain | This is a short zinc-finger domain conserved from fungi to humans. It is Cx8Hx14Cx2C. | Domain | |
| PF00420 | NADH-ubiquinone/plastoquinone oxidoreductase chain 4L (Oxidored_q2) | NADH-ubiquinone/plastoquinone oxidoreductase chain 4L | - | Family | |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Membrane Protein Annotation: PDBTM PDBTM Database Homepage
| Chains | External Link | Comment |
|---|---|---|
| PDBTM | Annotated as membrane protein by PDBTM |
Membrane Protein Annotation: mpstruc mpstruc Database Homepage
| Chains | Resource Link | Group | Subgroup | Protein |
|---|---|---|---|---|
| mpstruc | TRANSMEMBRANE PROTEINS: ALPHA-HELICAL | Electron Transport Chain Complexes: Complex I | Mitochondrial Complex I in deactive form |














