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1P84
Biol. Unit 2
Info
Asym.Unit (380 KB)
Biol.Unit 1 (654 KB)
Biol.Unit 2 (84 KB)
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(1)
Title
:
HDBT INHIBITED YEAST CYTOCHROME BC1 COMPLEX
Authors
:
H. Palsdottir, C. G. Lojero, B. L. Trumpower, C. Hunte
Date
:
06 May 03 (Deposition) - 29 Jul 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K
Biol. Unit 1: A,B,C,D,E,F,G,H,I (2x)
Biol. Unit 2: J,K (2x)
Keywords
:
Cytochrome Bc1 Complex, Complex Iii, Ubiquinol, Cytochrome C Oxidoreductase, Hydroxyquinone, Hhdbt, Qo Site, Phospholipid, Membrane Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
H. Palsdottir, C. G. Lojero, B. L. Trumpower, C. Hunte
Structure Of The Yeast Cytochrome Bc1 Complex With A Hydroxyquinone Anion Qo Site Inhibitor Bound
J. Biol. Chem. V. 278 31303 2003
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
Info
All Hetero Components
1a: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOETH... (3PEa)
1b: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOETH... (3PEb)
2a: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE (3PHa)
2b: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE (3PHb)
3a: CARDIOLIPIN (CDLa)
4a: 5-HEPTYL-6-HYDROXY-1,3-BENZOTHIAZO... (DBTa)
5a: FE2/S2 (INORGANIC) CLUSTER (FESa)
6a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
6b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
6c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
7a: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1a)
8a: UNDECYL-MALTOSIDE (UMQa)
9a: 5-(3,7,11,15,19,23-HEXAMETHYL-TETR... (UQ6a)
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Sites
(0, 0)
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(14, 16)
Info
All SCOP Domains
01a: SCOP_d1p84d1 (D:62-260)
02a: SCOP_d1p84j_ (J:)
03a: SCOP_d1p84k_ (K:)
04a: SCOP_d1p84e1 (E:87-215)
05a: SCOP_d1p84a1 (A:27-239)
05b: SCOP_d1p84a2 (A:240-457)
06a: SCOP_d1p84b1 (B:17-218)
06b: SCOP_d1p84b2 (B:219-368)
07a: SCOP_d1p84g_ (G:)
08a: SCOP_d1p84c1 (C:262-385)
09a: SCOP_d1p84c2 (C:1-261)
10a: SCOP_d1p84f_ (F:)
11a: SCOP_d1p84d2 (D:261-307)
12a: SCOP_d1p84e2 (E:31-86)
13a: SCOP_d1p84i_ (I:)
14a: SCOP_d1p84h_ (H:)
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Superfamilies
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(
)
Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Cytochrome c
(308)
Superfamily
:
Cytochrome c
(308)
Family
:
Cytochrome bc1 domain
(36)
Protein domain
:
Cytochrome bc1 domain
(27)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(7)
01a
d1p84d1
D:62-260
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
Immunoglobulin heavy chain variable domain, VH
(658)
Mouse (Mus musculus), cluster 7.1 [TaxId: 10090]
(38)
02a
d1p84j_
J:
Protein domain
:
Immunoglobulin light chain kappa variable domain, VL-kappa
(616)
Mouse (Mus musculus), cluster 4 [TaxId: 10090]
(211)
03a
d1p84k_
K:
Fold
:
ISP domain
(115)
Superfamily
:
ISP domain
(115)
Family
:
Rieske iron-sulfur protein (ISP)
(50)
Protein domain
:
ISP subunit of the mitochondrial cytochrome bc1-complex, water-soluble domain
(28)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(7)
04a
d1p84e1
E:87-215
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
LuxS/MPP-like metallohydrolase
(89)
Superfamily
:
LuxS/MPP-like metallohydrolase
(89)
Family
:
MPP-like
(65)
Protein domain
:
Cytochrome bc1 core subunit 1
(27)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(7)
05a
d1p84a1
A:27-239
05b
d1p84a2
A:240-457
Protein domain
:
Cytochrome bc1 core subunit 2
(27)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(7)
06a
d1p84b1
B:17-218
06b
d1p84b2
B:219-368
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Superfamily
:
14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Family
:
14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Protein domain
:
14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(21)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(4)
07a
d1p84g_
G:
Fold
:
a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(46)
Superfamily
:
a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(46)
Family
:
a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(39)
Protein domain
:
Mitochondrial cytochrome b subunit, C-terminal domain
(30)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(5)
08a
d1p84c1
C:262-385
Fold
:
Heme-binding four-helical bundle
(113)
Superfamily
:
Transmembrane di-heme cytochromes
(48)
Family
:
Cytochrome b of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(46)
Protein domain
:
Mitochondrial cytochrome b subunit, N-terminal domain
(30)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(5)
09a
d1p84c2
C:1-261
Fold
:
Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Superfamily
:
Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Family
:
Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Protein domain
:
Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(20)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(5)
10a
d1p84f_
F:
Fold
:
Single transmembrane helix
(568)
Superfamily
:
Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor
(36)
Family
:
Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor
(27)
Protein domain
:
Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor
(27)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(7)
11a
d1p84d2
D:261-307
Superfamily
:
ISP transmembrane anchor
(35)
Family
:
ISP transmembrane anchor
(32)
Protein domain
:
Iron-sulfur subunit (ISP) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane region
(27)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(7)
12a
d1p84e2
E:31-86
Superfamily
:
Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Family
:
Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Protein domain
:
Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(25)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(4)
13a
d1p84i_
I:
Superfamily
:
Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Family
:
Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(36)
Protein domain
:
Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(28)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(7)
14a
d1p84h_
H:
[
close SCOP info
]
CATH Domains
(11, 15)
Info
all CATH domains
01a: CATH_1p84B01 (B:17-227)
01b: CATH_1p84A02 (A:235-457)
01c: CATH_1p84B02 (B:234-368)
01d: CATH_1p84A01 (A:27-228)
02a: CATH_1p84D02 (D:65-261)
03a: CATH_1p84G00 (G:3-127)
04a: CATH_1p84F00 (F:74-147)
05a: CATH_1p84C00 (C:1-385)
06a: CATH_1p84D01 (D:262-306)
07a: CATH_1p84H00 (H:2-94)
08a: CATH_1p84I00 (I:4-58)
09a: CATH_1p84E01 (E:31-85)
10a: CATH_1p84E02 (E:86-215)
11a: CATH_1p84K00 (K:1-107)
11b: CATH_1p84J00 (J:1-127)
View:
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Classes
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)
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(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Cytochrome Bc1 Complex; Chain A, domain 1
(45)
Homologous Superfamily
:
Cytochrome Bc1 Complex; Chain A, domain 1
(45)
Baker's yeast (Saccharomyces cerevisiae)
(9)
01a
1p84B01
B:17-227
01b
1p84A02
A:235-457
01c
1p84B02
B:234-368
01d
1p84A01
A:27-228
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cytochrome Bc1 Complex; Chain D, domain 2
(279)
Homologous Superfamily
:
Cytochrome c
(279)
Baker's yeast (Saccharomyces cerevisiae)
(49)
02a
1p84D02
D:65-261
Topology
:
Cytochrome Bc1 Complex; Chain F
(39)
Homologous Superfamily
:
Cytochrome Bc1 Complex; Chain F
(39)
Baker's yeast (Saccharomyces cerevisiae)
(5)
03a
1p84G00
G:3-127
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.20, no name defined]
(39)
Baker's yeast (Saccharomyces cerevisiae)
(5)
04a
1p84F00
F:74-147
Architecture
:
Up-down Bundle
(3216)
Topology
:
Cytochrome Bc1 Complex; Chain C
(51)
Homologous Superfamily
:
Cytochrome Bc1 Complex; Chain C
(51)
Baker's yeast (Saccharomyces cerevisiae)
(5)
05a
1p84C00
C:1-385
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
[code=1.20.5.100, no name defined]
(56)
Baker's yeast (Saccharomyces cerevisiae)
(5)
06a
1p84D01
D:262-306
Homologous Superfamily
:
[code=1.20.5.210, no name defined]
(39)
Baker's yeast (Saccharomyces cerevisiae)
(5)
07a
1p84H00
H:2-94
Homologous Superfamily
:
[code=1.20.5.260, no name defined]
(39)
Baker's yeast (Saccharomyces cerevisiae)
(5)
08a
1p84I00
I:4-58
Homologous Superfamily
:
[code=1.20.5.270, no name defined]
(39)
Baker's yeast (Saccharomyces cerevisiae)
(5)
09a
1p84E01
E:31-85
Class
:
Mainly Beta
(13760)
Architecture
:
3-layer Sandwich
(102)
Topology
:
Rieske Iron-sulfur Protein
(99)
Homologous Superfamily
:
'Rieske'-like iron-sulphur domains
(99)
Baker's yeast (Saccharomyces cerevisiae)
(5)
10a
1p84E02
E:86-215
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Baker's yeast (Saccharomyces cerevisiae)
(5)
11a
1p84K00
K:1-107
11b
1p84J00
J:1-127
[
close CATH info
]
Pfam Domains
(11, 13)
Info
all PFAM domains
01a: PFAM_Cytochrom_B_N_2_1p84C01 (C:87-254)
02a: PFAM_Cytochrom_C1_1p84D01 (D:76-295)
03a: PFAM_Rieske_1p84E01 (E:116-208)
04a: PFAM_Peptidase_M16_1p84A01 (A:37-182)
04b: PFAM_Peptidase_M16_1p84B01 (B:17-163)
05a: PFAM_Peptidase_M16_C_1p84A02 (A:187-370)
05b: PFAM_Peptidase_M16_C_1p84B02 (B:166-327)
06a: PFAM_UcrQ_1p84H01 (H:12-91)
07a: PFAM_Cytochrom_B_C_1p84C02 (C:259-360)
08a: PFAM_UCR_14kD_1p84G01 (G:15-119)
09a: PFAM_UCR_TM_1p84E02 (E:31-87)
10a: PFAM_UCR_UQCRX_QCR9_1p84I01 (I:4-57)
11a: PFAM_UCR_hinge_1p84F01 (F:75-147)
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Clans
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Families
(
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(
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Organisms
(
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(
)
Clan
:
2heme_cytochrom
(31)
Family
:
Cytochrom_B_N_2
(27)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
01a
Cytochrom_B_N_2-1p84C01
C:87-254
Clan
:
Cytochrome-c
(108)
Family
:
Cytochrom_C1
(24)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
02a
Cytochrom_C1-1p84D01
D:76-295
Clan
:
ISP-domain
(54)
Family
:
Rieske
(53)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
03a
Rieske-1p84E01
E:116-208
Clan
:
Peptidase_ME
(35)
Family
:
Peptidase_M16
(29)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
04a
Peptidase_M16-1p84A01
A:37-182
04b
Peptidase_M16-1p84B01
B:17-163
Family
:
Peptidase_M16_C
(29)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
05a
Peptidase_M16_C-1p84A02
A:187-370
05b
Peptidase_M16_C-1p84B02
B:166-327
Clan
:
UcrQ-like
(20)
Family
:
UcrQ
(20)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
06a
UcrQ-1p84H01
H:12-91
Clan
:
no clan defined [family: Cytochrom_B_C]
(27)
Family
:
Cytochrom_B_C
(27)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
07a
Cytochrom_B_C-1p84C02
C:259-360
Clan
:
no clan defined [family: UCR_14kD]
(20)
Family
:
UCR_14kD
(20)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
08a
UCR_14kD-1p84G01
G:15-119
Clan
:
no clan defined [family: UCR_TM]
(20)
Family
:
UCR_TM
(20)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
09a
UCR_TM-1p84E02
E:31-87
Clan
:
no clan defined [family: UCR_UQCRX_QCR9]
(20)
Family
:
UCR_UQCRX_QCR9
(20)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
10a
UCR_UQCRX_QCR9-1p84I01
I:4-57
Clan
:
no clan defined [family: UCR_hinge]
(20)
Family
:
UCR_hinge
(20)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
11a
UCR_hinge-1p84F01
F:75-147
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