6RQF
3.6 Angstrom cryo-EM structure of the dimeric cytochrome b6f complex from Spinacia oleracea with natively bound thylakoid lipids and plastoquinone molecules
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) |
---|---|---|---|---|---|
A [auth I] | SCOP2 Family | Cytochrome b of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) | 8094396 | 4002208 | SCOP2 (2022-06-29) |
A [auth I] | SCOP2 Superfamily | Transmembrane di-heme cytochromes | 8094397 | 3000517 | SCOP2 (2022-06-29) |
I [auth A] | SCOP2B Superfamily | Transmembrane di-heme cytochromes | 8094397 | 3000517 | SCOP2B (2022-06-29) |
B [auth J] | SCOP2B Superfamily | a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) | 8093928 | 3000966 | SCOP2B (2022-06-29) |
J [auth B] | SCOP2 Family | a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) | 8093927 | 4002216 | SCOP2 (2022-06-29) |
J [auth B] | SCOP2 Superfamily | a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) | 8093928 | 3000966 | SCOP2 (2022-06-29) |
D [auth L] | SCOP2B Superfamily | ISP domain | 8041548 | 3000233 | SCOP2B (2022-06-29) |
L [auth D] | SCOP2B Superfamily | ISP domain | 8041548 | 3000233 | SCOP2B (2022-06-29) |
H [auth P] | SCOP2 Family | PetN subunit of the cytochrome b6f complex | 8094652 | 4001705 | SCOP2 (2022-06-29) |
H [auth P] | SCOP2 Superfamily | PetN subunit of the cytochrome b6f complex | 8094653 | 3000279 | SCOP2 (2022-06-29) |
P [auth H] | SCOP2B Superfamily | PetN subunit of the cytochrome b6f complex | 8094653 | 3000279 | 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 I] | Cytochrome_B | e6rqfI1 | 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: Cytochrome_B | ECOD (1.6) |
I [auth A] | Cytochrome_B | e6rqfA1 | 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: Cytochrome_B | ECOD (1.6) |
B [auth J] | Cytochrom_B_C | e6rqfJ1 | A: alpha bundles | X: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) (From Topology) | H: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) (From Topology) | T: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) | F: Cytochrom_B_C | ECOD (1.6) |
J [auth B] | Cytochrom_B_C | e6rqfB1 | A: alpha bundles | X: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) (From Topology) | H: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) (From Topology) | T: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) | F: Cytochrom_B_C | ECOD (1.6) |
D [auth L] | Rieske_cytochrome_b6f | e6rqfL3 | A: beta sandwiches | X: ISP domain (From Topology) | H: ISP domain (From Topology) | T: ISP domain | F: Rieske_cytochrome_b6f | ECOD (1.6) |
D [auth L] | Rieske_4 | e6rqfL2 | A: few secondary structure elements | X: Trm112p-like (From Topology) | H: Trm112p-like (From Topology) | T: Trm112p-like | F: Rieske_4 | ECOD (1.6) |
D [auth L] | CytB6-F_Fe-S | e6rqfL1 | A: extended segments | X: iron-sulfur subunit (ISP) transmembrane anchor (From Topology) | H: iron-sulfur subunit (ISP) transmembrane anchor (From Topology) | T: iron-sulfur subunit (ISP) transmembrane anchor | F: CytB6-F_Fe-S | ECOD (1.6) |
L [auth D] | Rieske_cytochrome_b6f | e6rqfD2 | A: beta sandwiches | X: ISP domain (From Topology) | H: ISP domain (From Topology) | T: ISP domain | F: Rieske_cytochrome_b6f | ECOD (1.6) |
L [auth D] | Rieske_4 | e6rqfD1 | A: few secondary structure elements | X: Trm112p-like (From Topology) | H: Trm112p-like (From Topology) | T: Trm112p-like | F: Rieske_4 | ECOD (1.6) |
L [auth D] | CytB6-F_Fe-S | e6rqfD3 | A: extended segments | X: iron-sulfur subunit (ISP) transmembrane anchor (From Topology) | H: iron-sulfur subunit (ISP) transmembrane anchor (From Topology) | T: iron-sulfur subunit (ISP) transmembrane anchor | F: CytB6-F_Fe-S | ECOD (1.6) |
E [auth M] | PetL | e6rqfM1 | A: extended segments | X: PetL subunit of the cytochrome b6f complex (From Topology) | H: PetL subunit of the cytochrome b6f complex (From Topology) | T: PetL subunit of the cytochrome b6f complex | F: PetL | ECOD (1.6) |
M [auth E] | PetL | e6rqfE1 | A: extended segments | X: PetL subunit of the cytochrome b6f complex (From Topology) | H: PetL subunit of the cytochrome b6f complex (From Topology) | T: PetL subunit of the cytochrome b6f complex | F: PetL | ECOD (1.6) |
F [auth N] | PetM | e6rqfN1 | A: extended segments | X: PetM subunit of the cytochrome b6f complex (From Topology) | H: PetM subunit of the cytochrome b6f complex (From Topology) | T: PetM subunit of the cytochrome b6f complex | F: PetM | ECOD (1.6) |
N [auth F] | PetM | e6rqfF1 | A: extended segments | X: PetM subunit of the cytochrome b6f complex (From Topology) | H: PetM subunit of the cytochrome b6f complex (From Topology) | T: PetM subunit of the cytochrome b6f complex | F: PetM | ECOD (1.6) |
G [auth O] | PetG | e6rqfO1 | A: extended segments | X: PetG subunit of the cytochrome b6f complex (From Topology) | H: PetG subunit of the cytochrome b6f complex (From Topology) | T: PetG subunit of the cytochrome b6f complex | F: PetG | ECOD (1.6) |
O [auth G] | PetG | e6rqfG1 | A: extended segments | X: PetG subunit of the cytochrome b6f complex (From Topology) | H: PetG subunit of the cytochrome b6f complex (From Topology) | T: PetG subunit of the cytochrome b6f complex | F: PetG | ECOD (1.6) |
H [auth P] | PetN | e6rqfP1 | A: extended segments | X: PetN subunit of the cytochrome b6f complex (From Topology) | H: PetN subunit of the cytochrome b6f complex (From Topology) | T: PetN subunit of the cytochrome b6f complex | F: PetN | ECOD (1.6) |
P [auth H] | PetN | e6rqfH1 | A: extended segments | X: PetN subunit of the cytochrome b6f complex (From Topology) | H: PetN subunit of the cytochrome b6f complex (From Topology) | T: PetN subunit of the cytochrome b6f complex | F: PetN | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A [auth I], I [auth A] | PF00033 | Cytochrome b/b6/petB (Cytochrome_B) | Cytochrome b/b6/petB | Domain | |
B [auth J], J [auth B] | PF00032 | Cytochrome b(C-terminal)/b6/petD (Cytochrom_B_C) | Cytochrome b(C-terminal)/b6/petD | Domain | |
C [auth K], K [auth C] | PF16639 | Apocytochrome F, N-terminal (Apocytochr_F_N) | Apocytochrome F, N-terminal | This is the N-terminal domain of cytochrome f. It is a soluble lumen-side domain [1]. | Domain |
C [auth K], K [auth C] | PF01333 | Apocytochrome F, C-terminal (Apocytochr_F_C) | Apocytochrome F, C-terminal | This is a sub-family of cytochrome C. See Pfam:PF00034. | Domain |
D [auth L], L [auth D] | PF00355 | Rieske [2Fe-2S] domain (Rieske) | Rieske [2Fe-2S] domain | The rieske domain has a [2Fe-2S] centre. Two conserved cysteines coordinate one Fe ion, while the other Fe ion is coordinated by two conserved histidines. In hyperthermophilic archaea there is a SKTPCX(2-3)C motif at the C-terminus. The cysteines in ... | Domain |
E [auth M], M [auth E] | PF05115 | Cytochrome B6-F complex subunit VI (PetL) (PetL) | Cytochrome B6-F complex subunit VI (PetL) | - | Family |
F [auth N], N [auth F] | PF08041 | PetM family of cytochrome b6f complex subunit 7 (PetM) | PetM family of cytochrome b6f complex subunit 7 | - | Family |
G [auth O], O [auth G] | PF02529 | Cytochrome B6-F complex subunit 5 (PetG) | Cytochrome B6-F complex subunit 5 | - | Family |
H [auth P], P [auth H] | PF03742 | PetN (PetN) | PetN | - | 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 | Cytochrome bc1 and b6f complexes |
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 |