7ARB
Cryo-EM structure of Arabidopsis thaliana Complex-I (complete composition)
External Resource: Annotation
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
| Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
|---|---|---|---|---|---|
| K | SCOP2B Superfamily | NADH-quinone oxidoreductase, subunit 11-like | 8101595 | 3002200 | SCOP2B (2022-06-29) |
| Q | SCOP2B Superfamily | NADH-ubiquinone oxidoreductase-like | 8101739 | 3002258 | SCOP2B (2022-06-29) |
| S | SCOP2B Superfamily | Thioredoxin-like | 8101737 | 3000031 | SCOP2B (2022-06-29) |
| B | SCOP2B Superfamily | Nqo6/HydA N-terminal domain-like | 8101623 | 3002291 | SCOP2B (2022-06-29) |
| T | SCOP2B Superfamily | ACP-like | 8101545 | 3001805 | SCOP2B (2022-06-29) |
| U | SCOP2B Superfamily | ACP-like | 8101483 | 3001805 | SCOP2B (2022-06-29) |
| D | SCOP2B Superfamily | HydB/Nqo4-like | 8101589 | 3001849 | SCOP2B (2022-06-29) |
| E | SCOP2B Superfamily | Thioredoxin-like | 8101475 | 3000031 | 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 | Oxidored_q4 | e7arbA1 | 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) |
| J | Oxidored_q3 | e7arbJ1 | 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) |
| K | Oxidored_q2 | e7arbK1 | 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) |
| L | Proton_antipo_M | e7arbL1 | 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) |
| M | Proton_antipo_M | e7arbM1 | 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) |
| N | Proton_antipo_M | e7arbN1 | 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) |
| O | Fer2 | e7arbO1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Ubiquitin-like | F: Fer2 | ECOD (1.6) |
| P | NmrA | e7arbP1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: NAD(P)-binding Rossmann-fold domains | F: NmrA | ECOD (1.6) |
| Q | ETC_C1_NDUFA4 | e7arbQ1 | A: a+b two layers | X: Putative oxidoreductase (From Topology) | H: Putative oxidoreductase (From Topology) | T: Putative oxidoreductase | F: ETC_C1_NDUFA4 | ECOD (1.6) |
| R | zf-CHCC | e7arbR1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Cytochrome c oxidase Subunit F | F: zf-CHCC | ECOD (1.6) |
| S | L51_S25_CI-B8 | e7arbS1 | A: a+b three layers | X: Thioredoxin-like | H: Thioredoxin-like (From Topology) | T: Thioredoxin-like | F: L51_S25_CI-B8 | ECOD (1.6) |
| B | Oxidored_q6 | e7arbB1 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Class I glutamine amidotransferase-like | T: CheY-like | F: Oxidored_q6 | ECOD (1.6) |
| T | PP-binding | e7arbT1 | A: alpha bundles | X: ACP-like | H: Acyl-carrier protein (ACP) (From Topology) | T: Acyl-carrier protein (ACP) | F: PP-binding | ECOD (1.6) |
| U | PP-binding | e7arbU1 | A: alpha bundles | X: ACP-like | H: Acyl-carrier protein (ACP) (From Topology) | T: Acyl-carrier protein (ACP) | F: PP-binding | ECOD (1.6) |
| W | Complex1_LYR | e7arbW1 | A: alpha bundles | X: LYR protein (From Topology) | H: LYR protein (From Topology) | T: LYR protein | F: Complex1_LYR | ECOD (1.6) |
| X | F_UNCLASSIFIED | e7arbX2 | A: few secondary structure elements | X: p8-MTCP1-related (From Topology) | H: p8-MTCP1-related (From Topology) | T: p8-MTCP1-related | F: F_UNCLASSIFIED | ECOD (1.6) |
| X | CHCH | e7arbX1 | A: few secondary structure elements | X: p8-MTCP1-related (From Topology) | H: p8-MTCP1-related (From Topology) | T: p8-MTCP1-related | F: CHCH | ECOD (1.6) |
| Y [auth Z] | GRIM-19 | e7arbZ1 | A: extended segments | X: Mitochondrial complex I, B16.6 subunit (From Topology) | H: Mitochondrial complex I, B16.6 subunit (From Topology) | T: Mitochondrial complex I, B16.6 subunit | F: GRIM-19 | ECOD (1.6) |
| Z [auth a] | MWFE | e7arba1 | A: extended segments | X: Mitochondrial complex I, MWFE subunit (From Topology) | H: Mitochondrial complex I, MWFE subunit (From Topology) | T: Mitochondrial complex I, MWFE subunit | F: MWFE | ECOD (1.6) |
| C | Complex1_30kDa | e7arbC1 | A: a+b two layers | X: Nqo5-like | H: Nqo5-like (From Topology) | T: Nqo5-like | F: Complex1_30kDa | ECOD (1.6) |
| DA [auth e] | Ndufs5 | e7arbe1 | A: alpha bundles | X: cytochrome bc1 complex 11 kDa protein-like | H: CHCH domain (From Topology) | T: CHCH domain | F: Ndufs5 | ECOD (1.6) |
| HA [auth j] | NADH_B2 | e7arbj1 | A: extended segments | X: Mitochondrial complex I, AGGG subunit (From Topology) | H: Mitochondrial complex I, AGGG subunit (From Topology) | T: Mitochondrial complex I, AGGG subunit | F: NADH_B2 | ECOD (1.6) |
| LA [auth n] | Complex1_LYR | e7arbn1 | A: alpha bundles | X: LYR protein (From Topology) | H: LYR protein (From Topology) | T: LYR protein | F: Complex1_LYR | ECOD (1.6) |
| D | Complex1_49kDa_1st | e7arbD3 | 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) |
| D | NuoD | e7arbD1 | 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) |
| D | Complex1_49kDa_2nd | e7arbD2 | 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) |
| OA [auth q] | NDUFA12 | e7arbq1 | A: a+b three layers | X: Mitochondrial complex I, B17.2 subunit (From Topology) | H: Mitochondrial complex I, B17.2 subunit (From Topology) | T: Mitochondrial complex I, B17.2 subunit | F: NDUFA12 | ECOD (1.6) |
| SA [auth x] | Hexapep_2_1 | e7arbx1 | A: beta duplicates or obligate multimers | X: Single-stranded left-handed beta-helix | H: Trimeric LpxA-like enzymes (From Topology) | T: Trimeric LpxA-like enzymes | F: Hexapep_2_1 | ECOD (1.6) |
| E | 2Fe-2S_thioredx_N | e7arbE1 | A: alpha bundles | X: NQO2 helical bundle domain (From Topology) | H: NQO2 helical bundle domain (From Topology) | T: NQO2 helical bundle domain | F: 2Fe-2S_thioredx_N | ECOD (1.6) |
| E | 2Fe-2S_thioredx_C | e7arbE2 | A: a+b three layers | X: Thioredoxin-like | H: Thioredoxin-like (From Topology) | T: Thioredoxin-like | F: 2Fe-2S_thioredx_C | ECOD (1.6) |
| F | NADH_4Fe-4S | e7arbF2 | A: alpha bundles | X: Bromodomain-like | H: Nqo1C-terminal domain-like (From Topology) | T: Nqo1C-terminal domain-like | F: NADH_4Fe-4S | ECOD (1.6) |
| F | SLBB | e7arbF3 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Nqo1 middle domain-like | F: SLBB | ECOD (1.6) |
| F | Complex1_51K | e7arbF1 | A: a/b three-layered sandwiches | X: Nqo1 FMN-binding domain-like (From Topology) | H: Nqo1 FMN-binding domain-like (From Topology) | T: Nqo1 FMN-binding domain-like | F: Complex1_51K | ECOD (1.6) |
| G | PRK09129 | e7arbG6 | A: a+b two layers | X: 4Fe-4S ferredoxin (From Topology) | H: 4Fe-4S ferredoxin (From Topology) | T: 4Fe-4S ferredoxin | F: PRK09129 | ECOD (1.6) |
| G | Fer2_4 | e7arbG3 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Ubiquitin-like | F: Fer2_4 | ECOD (1.6) |
| G | Molybdop_Fe4S4_1 | e7arbG4 | A: a+b two layers | X: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology) | H: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology) | T: Formate dehydrogenase/DMSO reductase, domain 1 | F: Molybdop_Fe4S4_1 | ECOD (1.6) |
| G | Molybdopterin_2nd | e7arbG1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology) | T: Formate dehydrogenase/DMSO reductase, domains 2 and 3 | F: Molybdopterin_2nd | ECOD (1.6) |
| G | Molybdopterin_1st | e7arbG2 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology) | T: Formate dehydrogenase/DMSO reductase, domains 2 and 3 | F: Molybdopterin_1st | ECOD (1.6) |
| G | NADH-G_4Fe-4S_3 | e7arbG5 | A: extended segments | X: iron-sulfur center-binding helical hairpin (From Topology) | H: iron-sulfur center-binding helical hairpin (From Topology) | T: iron-sulfur center-binding helical hairpin | F: NADH-G_4Fe-4S_3 | ECOD (1.6) |
| H | NADHdh | e7arbH1 | 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) |
| I | Fer4_21_1 | e7arbI1 | 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) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| PF15879 | NADH-ubiquinone oxidoreductase MWFE subunit (MWFE) | NADH-ubiquinone oxidoreductase MWFE subunit | - | Family | |
| PF00507 | NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 (Oxidored_q4) | NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 | - | Family | |
| PF00499 | NADH-ubiquinone/plastoquinone oxidoreductase chain 6 (Oxidored_q3) | NADH-ubiquinone/plastoquinone oxidoreductase chain 6 | - | Family | |
| PF08122 | NADH-ubiquinone oxidoreductase B12 subunit family (NDUF_B12) | NADH-ubiquinone oxidoreductase B12 subunit family | - | 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 | |
| PF06455 | NADH dehydrogenase subunit 5 C-terminus (NADH5_C) | NADH dehydrogenase subunit 5 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 | |
| PF00361 | Proton-conducting membrane transporter (Proton_antipo_M) | Proton-conducting membrane transporter | - | Family | |
| PF00361 | Proton-conducting membrane transporter (Proton_antipo_M) | Proton-conducting membrane transporter | - | Family | |
| PF05676 | NADH-ubiquinone oxidoreductase B18 subunit (NDUFB7) (NDUF_B7) | NADH-ubiquinone oxidoreductase B18 subunit (NDUFB7) | - | Family | |
| PF01370 | NAD dependent epimerase/dehydratase family (Epimerase) | NAD dependent epimerase/dehydratase family | - | Family | |
| PF10249 | NADH-ubiquinone oxidoreductase subunit 10 (NDUFB10) | NADH-ubiquinone oxidoreductase subunit 10 | - | Family | |
| PF04800 | NADH dehydrogenase ubiquinone Fe-S protein 4 (NDUS4) | NADH dehydrogenase ubiquinone Fe-S protein 4 | - | Family | |
| PF05071 | NADH ubiquinone oxidoreductase subunit NDUFA12 (NDUFA12) | NADH ubiquinone oxidoreductase subunit NDUFA12 | - | Family | |
| 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 | |
| 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 | |
| PF01058 | NADH ubiquinone oxidoreductase, 20 Kd subunit (Oxidored_q6) | NADH ubiquinone oxidoreductase, 20 Kd subunit | - | Family | |
| 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 | |
| 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 | |
| PF04716 | ETC complex I subunit conserved region (ETC_C1_NDUFA5) | ETC complex I subunit conserved region | - | Family | |
| 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 | |
| Y [auth Z] | PF06212 | GRIM-19 protein (GRIM-19) | GRIM-19 protein | - | Family |
| PF00329 | Respiratory-chain NADH dehydrogenase, 30 Kd subunit (Complex1_30kDa) | Respiratory-chain NADH dehydrogenase, 30 Kd subunit | - | Family | |
| PF00346 | Respiratory-chain NADH dehydrogenase, 49 Kd subunit (Complex1_49kDa) | Respiratory-chain NADH dehydrogenase, 49 Kd subunit | - | Family | |
| PF10200 | NADH:ubiquinone oxidoreductase, NDUFS5-15kDa (Ndufs5) | NADH:ubiquinone oxidoreductase, NDUFS5-15kDa | - | Family | |
| PF01257 | Thioredoxin-like [2Fe-2S] ferredoxin (2Fe-2S_thioredx) | Thioredoxin-like [2Fe-2S] ferredoxin | - | Family | |
| PF10531 | SLBB domain (SLBB) | SLBB domain | - | Domain | |
| 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 | |
| PF22461 | SLBB domain (SLBB_2) | SLBB domain | This entry represents a set of SLBB domains [5]. | Domain | |
| PF01512 | Respiratory-chain NADH dehydrogenase 51 Kd subunit (Complex1_51K) | Respiratory-chain NADH dehydrogenase 51 Kd subunit | - | Family | |
| PF10589 | NADH-ubiquinone oxidoreductase-F iron-sulfur binding region (NADH_4Fe-4S) | NADH-ubiquinone oxidoreductase-F iron-sulfur binding region | - | Domain | |
| PF00384 | Molybdopterin oxidoreductase (Molybdopterin) | Molybdopterin oxidoreductase | - | Family | |
| PF22151 | NADH-ubiquinone oxidoreductase NDSU1/NuoG-like, 4Fe-4S domain (NDSU1_4Fe-4S) | NADH-ubiquinone oxidoreductase NDSU1/NuoG-like, 4Fe-4S domain | This entry represents the 4Fe-4S domain of NADH-ubiquinone oxidoreductase NDUFS1 from mammals and NuoG from bacteria, which are part of respiratory chain complex I [1-5]. | Domain | |
| PF13510 | 2Fe-2S iron-sulfur cluster binding domain (Fer2_4) | 2Fe-2S iron-sulfur cluster binding domain | The 2Fe-2S ferredoxin family have a general core structure consisting of beta(2)-alpha-beta(2) which a beta-grasp type fold. The domain is around one hundred amino acids with four conserved cysteine residues to which the 2Fe-2S cluster is ligated. Th ... | Domain | |
| PF22117 | NADH-quinone oxidoreductase subunit 3, ferredoxin-like domain (Nqo3_Fer4) | NADH-quinone oxidoreductase subunit 3, ferredoxin-like domain | NADH-quinone oxidoreductase subunit 3 (Nqo3) is a component of respiratory complex I. This protein is located at the peripheral arm of the complex and consists of multiple domains. This entry represents the second ferredoxin-like domain which contain ... | Domain | |
| PF09326 | NADH-ubiquinone oxidoreductase subunit G, C-terminal (NADH_dhqG_C) | NADH-ubiquinone oxidoreductase subunit G, C-terminal | - | Family | |
| PF10588 | NADH-ubiquinone oxidoreductase-G iron-sulfur binding region (NADH-G_4Fe-4S_3) | NADH-ubiquinone oxidoreductase-G iron-sulfur binding region | - | Domain | |
| PF00146 | NADH dehydrogenase (NADHdh) | NADH dehydrogenase | - | 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
| 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, complete composition |
