Macromolecule Annotations for the Entities in PDB 1VF5

Domain Annotation: SCOP Classification SCOP Database (version: 1.75) Homepage

Chains Domain Info Class Fold Superfamily Family Domain Species
A d1vf5a_ Membrane and cell surface proteins and peptides Heme-binding four-helical bundle Transmembrane di-heme cytochromes Cytochrome b of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Cytochrome b6 subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
B d1vf5b_ Membrane and cell surface proteins and peptides a domain/subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) a domain/subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) a domain/subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Subunit IV of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
C1-169,C232-249 d1vf5c1 All beta proteins Common fold of diphtheria toxin/transcription factors/cytochrome f Cytochrome f, large domain Cytochrome f, large domain Cytochrome f, large domain Mastigocladus laminosus [TaxId: 83541]
C170-231 d1vf5c2 All beta proteins Barrel-sandwich hybrid Rudiment single hybrid motif Cytochrome f, small domain Cytochrome f, small domain Mastigocladus laminosus [TaxId: 83541]
C250-286 d1vf5c3 Membrane and cell surface proteins and peptides Single transmembrane helix Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor Mastigocladus laminosus [TaxId: 83541]
D46-179 d1vf5d1 All beta proteins ISP domain ISP domain Rieske iron-sulfur protein (ISP) ISP subunit from the cytochrome b6f complex, soluble domain Mastigocladus laminosus [TaxId: 83541]
D12-45 d1vf5d2 Membrane and cell surface proteins and peptides Single transmembrane helix ISP transmembrane anchor ISP transmembrane anchor ISP subunit from the cytochrome b6f complex, transmembrane anchor Mastigocladus laminosus [TaxId: 83541]
E d1vf5e_ Membrane and cell surface proteins and peptides Single transmembrane helix PetL subunit of the cytochrome b6f complex PetL subunit of the cytochrome b6f complex PetL subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
F d1vf5f_ Membrane and cell surface proteins and peptides Single transmembrane helix PetM subunit of the cytochrome b6f complex PetM subunit of the cytochrome b6f complex PetM subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
G d1vf5g_ Membrane and cell surface proteins and peptides Single transmembrane helix PetG subunit of the cytochrome b6f complex PetG subunit of the cytochrome b6f complex PetG subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
H d1vf5h_ Membrane and cell surface proteins and peptides Single transmembrane helix PetN subunit of the cytochrome b6f complex PetN subunit of the cytochrome b6f complex PetN subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
N d1vf5n_ Membrane and cell surface proteins and peptides Heme-binding four-helical bundle Transmembrane di-heme cytochromes Cytochrome b of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Cytochrome b6 subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
O d1vf5o_ Membrane and cell surface proteins and peptides a domain/subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) a domain/subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) a domain/subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Subunit IV of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
P1-169,P232-249 d1vf5p1 All beta proteins Common fold of diphtheria toxin/transcription factors/cytochrome f Cytochrome f, large domain Cytochrome f, large domain Cytochrome f, large domain Mastigocladus laminosus [TaxId: 83541]
P170-231 d1vf5p2 All beta proteins Barrel-sandwich hybrid Rudiment single hybrid motif Cytochrome f, small domain Cytochrome f, small domain Mastigocladus laminosus [TaxId: 83541]
P250-286 d1vf5p3 Membrane and cell surface proteins and peptides Single transmembrane helix Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor Mastigocladus laminosus [TaxId: 83541]
Q46-179 d1vf5q1 All beta proteins ISP domain ISP domain Rieske iron-sulfur protein (ISP) ISP subunit from the cytochrome b6f complex, soluble domain Mastigocladus laminosus [TaxId: 83541]
Q12-45 d1vf5q2 Membrane and cell surface proteins and peptides Single transmembrane helix ISP transmembrane anchor ISP transmembrane anchor ISP subunit from the cytochrome b6f complex, transmembrane anchor Mastigocladus laminosus [TaxId: 83541]
R d1vf5r_ Membrane and cell surface proteins and peptides Single transmembrane helix PetL subunit of the cytochrome b6f complex PetL subunit of the cytochrome b6f complex PetL subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
S d1vf5s_ Membrane and cell surface proteins and peptides Single transmembrane helix PetM subunit of the cytochrome b6f complex PetM subunit of the cytochrome b6f complex PetM subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
T d1vf5t_ Membrane and cell surface proteins and peptides Single transmembrane helix PetG subunit of the cytochrome b6f complex PetG subunit of the cytochrome b6f complex PetG subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]
U d1vf5u_ Membrane and cell surface proteins and peptides Single transmembrane helix PetN subunit of the cytochrome b6f complex PetN subunit of the cytochrome b6f complex PetN subunit of the cytochrome b6f complex Mastigocladus laminosus [TaxId: 83541]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains Domain Class Architecture Topology Homology
A 1vf5A00 Mainly Alpha Up-down Bundle Cytochrome Bc1 Complex; Chain C Cytochrome Bc1 Complex; Chain C
B1 1vf5B01 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces Single helix bin
B2 1vf5B02 Mainly Alpha Orthogonal Bundle Helix Hairpins plastocyanin oxidoreductase
C1 1vf5C01 Mainly Beta Sandwich Immunoglobulin-like
C2 1vf5C02 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P)
C3 1vf5C03 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces Single helix bin
D1 1vf5D01 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces Single helix bin
D2 1vf5D02 Mainly Beta 3-layer Sandwich Rieske Iron-sulfur Protein 'Rieske'-like iron-sulphur domains
N 1vf5N00 Mainly Alpha Up-down Bundle Cytochrome Bc1 Complex; Chain C Cytochrome Bc1 Complex; Chain C
O1 1vf5O01 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces Single helix bin
O2 1vf5O02 Mainly Alpha Orthogonal Bundle Helix Hairpins plastocyanin oxidoreductase
P1 1vf5P01 Mainly Beta Sandwich Immunoglobulin-like
P2 1vf5P02 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P)
P3 1vf5P03 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces Single helix bin
Q1 1vf5Q01 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces Single helix bin
Q2 1vf5Q02 Mainly Beta 3-layer Sandwich Rieske Iron-sulfur Protein 'Rieske'-like iron-sulphur domains

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
H PF03742 PetN PetN Family
A PF13631 Cytochrom_B_N_2 Cytochrome b(N-terminal)/b6/petB Domain PFAM PF13631
D PF08802 CytB6-F_Fe-S Cytochrome B6-F complex Fe-S subunit Domain The cytochrome B6-F complex mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions. This domain corresponds to the alpha helical transmembrane domain of the cytochrome B6-F complex iron-sulphur subunit. PFAM PF08802
F PF08041 PetM PetM family of cytochrome b6f complex subunit 7 Family
D PF00355 Rieske Rieske [2Fe-2S] domain 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 this motif form a disulphide bridge, which stabilises the protein [4]. PFAM PF00355
B PF00032 Cytochrom_B_C Cytochrome b(C-terminal)/b6/petD Domain PFAM PF00032
G PF02529 PetG Cytochrome B6-F complex subunit 5 Family
C PF01333 Apocytochr_F_C Apocytochrome F, C-terminal Domain This is a sub-family of cytochrome C. See Pfam:PF00034. PFAM PF01333

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A,N CYTOCHROME B6 (1VF5:A,N)
B,O SUBUNIT IV (1VF5:B,O)
C,P CYTOCHROME F (1VF5:C,P)
D,Q RIESKE IRON-SULFUR PROTEIN (1VF5:D,Q)
E,R PROTEIN PET L (1VF5:E,R)
F,S PROTEIN PET M (1VF5:F,S)
G,T PROTEIN PET G (1VF5:G,T)
H,U PROTEIN PET N (1VF5:H,U)

Protein Modification Annotation

Type PDB Residue Nr. Description