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2FYU
Biol. Unit 1
Info
Asym.Unit (355 KB)
Biol.Unit 1 (674 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF BOVINE HEART MITOCHONDRIAL BC1 WITH JG144 INHIBITOR
Authors
:
D. Xia, L. Esser
Date
:
08 Feb 06 (Deposition) - 29 Aug 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.26
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,J,K (2x)
Keywords
:
Transmembrane Helices, 11 Protein Complex, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Esser, X. Gong, S. Yang, L. Yu, C. A. Yu, D. Xia
Surface-Modulated Motion Switch: Capture And Release Of Iron-Sulfur Protein In The Cytochrome Bc1 Complex.
Proc. Natl. Acad. Sci. Usa V. 103 13045 2006
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Hetero Components
(3, 10)
Info
All Hetero Components
1a: (5S)-3-ANILINO-5-(2,4-DIFLUOROPHEN... (FDNa)
2a: FE2/S2 (INORGANIC) CLUSTER (FESa)
3a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
3b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
3c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FDN
2
Ligand/Ion
(5S)-3-ANILINO-5-(2,4-DIFLUOROPHENYL)-5-METHYL-1,3-OXAZOLIDINE-2,4-DIONE
2
FES
2
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
3
HEM
6
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
[
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN C:44 , ILE C:45 , GLY C:48 , LEU C:51 , ARG C:80 , HIS C:83 , ALA C:87 , PHE C:90 , THR C:126 , GLY C:130 , PRO C:134 , PHE C:179 , HIS C:182 , PHE C:183 , PRO C:186 , PHE C:187
BINDING SITE FOR RESIDUE HEM C 381
2
AC2
SOFTWARE
TRP C:31 , GLY C:34 , LEU C:37 , HIS C:97 , VAL C:98 , ARG C:100 , SER C:106 , THR C:112 , TRP C:113 , GLY C:116 , VAL C:117 , LEU C:119 , HIS C:196 , LEU C:200 , SER C:205 , ASN C:206 , HOH C:1012
BINDING SITE FOR RESIDUE HEM C 382
3
AC3
SOFTWARE
MET C:124 , PHE C:128 , TYR C:131 , MET C:138 , GLY C:142 , ILE C:146 , LYS C:269 , PRO C:270 , GLU C:271 , TYR C:273 , PHE C:274 , TYR C:278
BINDING SITE FOR RESIDUE FDN C 400
4
AC4
SOFTWARE
VAL D:36 , CYS D:37 , CYS D:40 , HIS D:41 , ASN D:105 , PRO D:111 , ARG D:120 , TYR D:126 , PHE D:153 , GLY D:159 , MET D:160
BINDING SITE FOR RESIDUE HEM D 242
5
AC5
SOFTWARE
CYS E:139 , HIS E:141 , LEU E:142 , CYS E:158 , HIS E:161 , SER E:163
BINDING SITE FOR RESIDUE FES E 200
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SAPs(SNPs)/Variants
(2, 4)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_QCR2_BOVIN_001 (T27R, chain B, )
2: VAR_CYB_BOVIN_001 (F90V, chain C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_QCR2_BOVIN_001
*
T
41
R
QCR2_BOVIN
---
---
B
T
27
R
2
UniProt
VAR_CYB_BOVIN_001
*
F
90
V
CYB_BOVIN
---
---
C
F
90
V
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 8)
Info
All PROSITE Patterns/Profiles
1: INSULINASE (B:54-77)
2: CYTC (D:24-125)
3: RIESKE (E:109-194)
4: CYTB_CTER (C:210-379)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
INSULINASE
PS00143
Insulinase family, zinc-binding region signature.
QCR2_BOVIN
68-91
2
B:54-77
2
CYTC
PS51007
Cytochrome c family profile.
CY1_BOVIN
108-209
2
D:24-125
3
RIESKE
PS51296
Rieske [2Fe-2S] iron-sulfur domain profile.
UCRI_BOVIN
187-272
2
E:109-194
4
CYTB_CTER
PS51003
Cytochrome b/b6 C-terminal region profile.
CYB_BOVIN
210-379
2
C:210-379
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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_d2fyud1 (D:1-195)
02a: SCOP_d2fyue2 (E:70-196)
03a: SCOP_d2fyua1 (A:1-233)
03b: SCOP_d2fyua2 (A:234-446)
04a: SCOP_d2fyub1 (B:17-235)
04b: SCOP_d2fyub2 (B:236-439)
05a: SCOP_d2fyui_ (I:)
06a: SCOP_d2fyuf_ (F:)
07a: SCOP_d2fyuc1 (C:261-379)
08a: SCOP_d2fyuc2 (C:2-260)
09a: SCOP_d2fyuh_ (H:)
10a: SCOP_d2fyud2 (D:196-241)
11a: SCOP_d2fyue1 (E:1-69)
12a: SCOP_d2fyuj_ (J:)
13a: SCOP_d2fyuk_ (K:)
14a: SCOP_d2fyug_ (G:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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)
Cow (Bos taurus) [TaxId: 9913]
(17)
01a
d2fyud1
D:1-195
Class
:
All beta proteins
(24004)
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)
Cow (Bos taurus) [TaxId: 9913]
(18)
02a
d2fyue2
E:70-196
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)
Cow (Bos taurus) [TaxId: 9913]
(17)
03a
d2fyua1
A:1-233
03b
d2fyua2
A:234-446
Protein domain
:
Cytochrome bc1 core subunit 2
(27)
Cow (Bos taurus) [TaxId: 9913]
(17)
04a
d2fyub1
B:17-235
04b
d2fyub2
B:236-439
Fold
:
Non-globular alpha+beta subunits of globular proteins
(21)
Superfamily
:
Non-globular alpha+beta subunits of globular proteins
(21)
Family
:
Ubiquinol-cytochrome c reductase 8 kDa protein
(17)
Protein domain
:
Ubiquinol-cytochrome c reductase 8 kDa protein
(14)
Cow (Bos taurus) [TaxId: 9913]
(14)
05a
d2fyui_
I:
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
:
automated matches
(15)
Cow (Bos taurus) [TaxId: 9913]
(4)
06a
d2fyuf_
F:
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)
Cow (Bos taurus) [TaxId: 9913]
(17)
07a
d2fyuc1
C:261-379
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)
Cow (Bos taurus) [TaxId: 9913]
(17)
08a
d2fyuc2
C:2-260
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
:
automated matches
(16)
Cow (Bos taurus) [TaxId: 9913]
(6)
09a
d2fyuh_
H:
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)
Cow (Bos taurus) [TaxId: 9913]
(17)
10a
d2fyud2
D:196-241
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)
Cow (Bos taurus) [TaxId: 9913]
(17)
11a
d2fyue1
E:1-69
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)
Cow (Bos taurus) [TaxId: 9913]
(18)
12a
d2fyuj_
J:
Superfamily
:
Subunit XI (6.4 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(15)
Family
:
Subunit XI (6.4 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
(15)
Protein domain
:
automated matches
(3)
Cow (Bos taurus) [TaxId: 9913]
(3)
13a
d2fyuk_
K:
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)
Cow (Bos taurus) [TaxId: 9913]
(18)
14a
d2fyug_
G:
[
close SCOP info
]
CATH Domains
(12, 15)
Info
all CATH domains
01a: CATH_2fyuA02 (A:239-442)
01b: CATH_2fyuB01 (B:17-227)
01c: CATH_2fyuB02 (B:239-439)
01d: CATH_2fyuA01 (A:14-227)
02a: CATH_2fyuD01 (D:1-196)
03a: CATH_2fyuF00 (F:5-110)
04a: CATH_2fyuH00 (H:15-78)
05a: CATH_2fyuC00 (C:2-379)
06a: CATH_2fyuD02 (D:197-241)
07a: CATH_2fyuG00 (G:1-75)
08a: CATH_2fyuK00 (K:1-53)
09a: CATH_2fyuJ00 (J:2-61)
10a: CATH_2fyuE01 (E:1-64)
11a: CATH_2fyuE02 (E:65-196)
12a: CATH_2fyuI00 (I:1-57)
View:
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Classes
(
)
(
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Architectures
(
)
(
)
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)
Cattle (Bos taurus)
(17)
01a
2fyuA02
A:239-442
01b
2fyuB01
B:17-227
01c
2fyuB02
B:239-439
01d
2fyuA01
A:14-227
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cytochrome Bc1 Complex; Chain D, domain 2
(279)
Homologous Superfamily
:
Cytochrome c
(279)
Cattle (Bos taurus)
(18)
02a
2fyuD01
D:1-196
Topology
:
Cytochrome Bc1 Complex; Chain F
(39)
Homologous Superfamily
:
Cytochrome Bc1 Complex; Chain F
(39)
Cattle (Bos taurus)
(17)
03a
2fyuF00
F:5-110
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.20, no name defined]
(39)
Cattle (Bos taurus)
(17)
04a
2fyuH00
H:15-78
Architecture
:
Up-down Bundle
(3216)
Topology
:
Cytochrome Bc1 Complex; Chain C
(51)
Homologous Superfamily
:
Cytochrome Bc1 Complex; Chain C
(51)
Cattle (Bos taurus)
(17)
05a
2fyuC00
C:2-379
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)
Cattle (Bos taurus)
(17)
06a
2fyuD02
D:197-241
Homologous Superfamily
:
[code=1.20.5.210, no name defined]
(39)
Cattle (Bos taurus)
(17)
07a
2fyuG00
G:1-75
Homologous Superfamily
:
[code=1.20.5.220, no name defined]
(20)
Cattle (Bos taurus)
(14)
08a
2fyuK00
K:1-53
Homologous Superfamily
:
[code=1.20.5.260, no name defined]
(39)
Cattle (Bos taurus)
(17)
09a
2fyuJ00
J:2-61
Homologous Superfamily
:
[code=1.20.5.270, no name defined]
(39)
Cattle (Bos taurus)
(17)
10a
2fyuE01
E:1-64
Class
:
Mainly Beta
(13760)
Architecture
:
3-layer Sandwich
(102)
Topology
:
Rieske Iron-sulfur Protein
(99)
Homologous Superfamily
:
'Rieske'-like iron-sulphur domains
(99)
Cattle (Bos taurus)
(18)
11a
2fyuE02
E:65-196
Architecture
:
Ribbon
(789)
Topology
:
Cytochrome Bc1 Complex; Chain I
(29)
Homologous Superfamily
:
Cytochrome Bc1 Complex; Chain I
(29)
Cattle (Bos taurus)
(17)
12a
2fyuI00
I:1-57
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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