Macromolecule Annotations for the Entities in PDB 1KB9

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

Chains Domain Info Class Fold Superfamily Family Domain Species
A27-239 d1kb9a1 Alpha and beta proteins (a+b) LuxS/MPP-like metallohydrolase LuxS/MPP-like metallohydrolase MPP-like Cytochrome bc1 core subunit 1 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
A240-457 d1kb9a2 Alpha and beta proteins (a+b) LuxS/MPP-like metallohydrolase LuxS/MPP-like metallohydrolase MPP-like Cytochrome bc1 core subunit 1 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
B17-218 d1kb9b1 Alpha and beta proteins (a+b) LuxS/MPP-like metallohydrolase LuxS/MPP-like metallohydrolase MPP-like Cytochrome bc1 core subunit 2 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
B219-368 d1kb9b2 Alpha and beta proteins (a+b) LuxS/MPP-like metallohydrolase LuxS/MPP-like metallohydrolase MPP-like Cytochrome bc1 core subunit 2 Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
C262-385 d1kb9c1 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) Mitochondrial cytochrome b subunit, C-terminal domain Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
C1-261 d1kb9c2 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) Mitochondrial cytochrome b subunit, N-terminal domain Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
D62-260 d1kb9d1 All alpha proteins Cytochrome c Cytochrome c Cytochrome bc1 domain Cytochrome bc1 domain Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
D261-307 d1kb9d2 Membrane and cell surface proteins and peptides Single transmembrane helix Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase), transmembrane anchor Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase), transmembrane anchor Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase), transmembrane anchor Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
E87-215 d1kb9e1 All beta proteins ISP domain ISP domain Rieske iron-sulfur protein (ISP) ISP subunit of the mitochondrial cytochrome bc1- complex, water-soluble domain Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
E31-86 d1kb9e2 Membrane and cell surface proteins and peptides Single transmembrane helix ISP transmembrane anchor ISP transmembrane anchor Iron-sulfur subunit (ISP) of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase), transmembrane region Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
F d1kb9f_ Membrane and cell surface proteins and peptides Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
G d1kb9g_ Membrane and cell surface proteins and peptides 14 kDa protein of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) 14 kDa protein of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) 14 kDa protein of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) 14 kDa protein of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
H d1kb9h_ Membrane and cell surface proteins and peptides Single transmembrane helix Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
I d1kb9i_ Membrane and cell surface proteins and peptides Single transmembrane helix Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol- cytochrome c reductase) Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
J d1kb9j_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin heavy chain variable domain, VH Mouse (Mus musculus), cluster 7.1 [TaxId: 10090]
K d1kb9k_ All beta proteins Immunoglobulin-like beta-sandwich Immunoglobulin V set domains (antibody variable domain-like) Immunoglobulin light chain kappa variable domain, VL- kappa Mouse (Mus musculus), cluster 4 [TaxId: 10090]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains Domain Class Architecture Topology Homology
A1 1kb9A01 Alpha Beta 2-Layer Sandwich Cytochrome Bc1 Complex; Chain A, domain 1 Cytochrome Bc1 Complex; Chain A, domain 1
A2 1kb9A02 Alpha Beta 2-Layer Sandwich Cytochrome Bc1 Complex; Chain A, domain 1 Cytochrome Bc1 Complex; Chain A, domain 1
B1 1kb9B01 Alpha Beta 2-Layer Sandwich Cytochrome Bc1 Complex; Chain A, domain 1 Cytochrome Bc1 Complex; Chain A, domain 1
B2 1kb9B02 Alpha Beta 2-Layer Sandwich Cytochrome Bc1 Complex; Chain A, domain 1 Cytochrome Bc1 Complex; Chain A, domain 1
C 1kb9C00 Mainly Alpha Up-down Bundle Cytochrome Bc1 Complex; Chain C Cytochrome Bc1 Complex; Chain C
D1 1kb9D01 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces
D2 1kb9D02 Mainly Alpha Orthogonal Bundle Cytochrome Bc1 Complex; Chain D, domain 2 Cytochrome c
E1 1kb9E01 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces
E2 1kb9E02 Mainly Beta 3-layer Sandwich Rieske Iron-sulfur Protein 'Rieske'-like iron-sulphur domains
F 1kb9F00 Mainly Alpha Orthogonal Bundle Helix Hairpins
G 1kb9G00 Mainly Alpha Orthogonal Bundle Cytochrome Bc1 Complex; Chain F Cytochrome Bc1 Complex; Chain F
H 1kb9H00 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces
I 1kb9I00 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces
J 1kb9J00 Mainly Beta Sandwich Immunoglobulin-like Immunoglobulins
K 1kb9K00 Mainly Beta Sandwich Immunoglobulin-like Immunoglobulins

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
J PF07686 V-set Immunoglobulin V-set domain Domain This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others. PFAM PF07686
H PF02939 UcrQ UcrQ family Family
K PF07686 V-set Immunoglobulin V-set domain Domain This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others. PFAM PF07686
E PF02921 UCR_TM Ubiquinol cytochrome reductase transmembrane region Family
D PF02167 Cytochrom_C1 Cytochrome C1 family Family
A PF00675 Peptidase_M16 Insulinase (Peptidase family M16) Family
B PF00675 Peptidase_M16 Insulinase (Peptidase family M16) Family
E 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
C PF13631 Cytochrom_B_N_2 Cytochrome b(N-terminal)/b6/petB Domain PFAM PF13631
F PF02320 UCR_hinge Ubiquinol-cytochrome C reductase hinge protein Family
G PF02271 UCR_14kD Ubiquinol-cytochrome C reductase complex 14kD subunit Family
C PF00032 Cytochrom_B_C Cytochrome b(C-terminal)/b6/petD Domain PFAM PF00032
I PF05365 UCR_UQCRX_QCR9 Ubiquinol-cytochrome C reductase, UQCRX/QCR9 like Family
A PF05193 Peptidase_M16_C Peptidase M16 inactive domain Domain Peptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp [1]. PFAM PF05193

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX CORE PROTEIN I (1KB9:A)
B UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX CORE PROTEIN 2 (1KB9:B)
C CYTOCHROME B (1KB9:C)
D CYTOCHROME C1, HEME PROTEIN (1KB9:D)
  • none
  • none
E UBIQUINOL-CYTOCHROME C REDUCTASE IRON-SULFUR SUBUNIT (1KB9:E)
F UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 17 KD PROTEIN (1KB9:F)
  • none
G UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 14 KD PROTEIN (1KB9:G)
H UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX UBIQUINONE- BINDING PROTEIN QP-C (1KB9:H)
I UBIQUINOL-CYTOCHROME C REDUCTASE COMPLEX 7.3 KD PROTEIN (1KB9:I)
  • none
J HEAVY CHAIN (VH) OF FV-FRAGMENT (1KB9:J)
  • none
  • none
  • none
K LIGHT CHAIN (VL) OF FV-FRAGMENT (1KB9:K)
  • none
  • none
  • none

Protein Modification Annotation

Type PDB Residue Nr. Description