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2JJ2
Biol. Unit 1
Info
Asym.Unit (1002 KB)
Biol.Unit 1 (497 KB)
Biol.Unit 2 (501 KB)
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(1)
Title
:
THE STRUCTURE OF F1-ATPASE INHIBITED BY QUERCETIN.
Authors
:
J. R. Gledhill, M. G. Montgomery, A. G. W. Leslie, J. E. Walker
Date
:
03 Jul 07 (Deposition) - 21 Aug 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N
Biol. Unit 1: A,B,C,D,E,F,G (1x)
Biol. Unit 2: H,I,J,K,L,M,N (1x)
Keywords
:
Atp Phosphorylase, Hydrolase, Atp Synthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. R. Gledhill, M. G. Montgomery, A. G. W. Leslie, J. E. Walker
Mechanism Of Inhibition Of Bovine F1-Atpase By Resveratrol And Related Polyphenols.
Proc. Nat. Acad. Sci. Usa V. 104 13632 2007
[
close entry info
]
Hetero Components
(6, 14)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
2a: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPa)
2b: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPb)
2c: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPc)
2d: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPd)
2e: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPe)
2f: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPf)
2g: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPg)
2h: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPh)
3a: AZIDE ION (AZIa)
3b: AZIDE ION (AZIb)
4a: GLYCEROL (GOLa)
4b: GLYCEROL (GOLb)
4c: GLYCEROL (GOLc)
4d: GLYCEROL (GOLd)
4e: GLYCEROL (GOLe)
4f: GLYCEROL (GOLf)
4g: GLYCEROL (GOLg)
4h: GLYCEROL (GOLh)
4i: GLYCEROL (GOLi)
4j: GLYCEROL (GOLj)
4k: GLYCEROL (GOLk)
4l: GLYCEROL (GOLl)
5a: MAGNESIUM ION (MGa)
5b: MAGNESIUM ION (MGb)
5c: MAGNESIUM ION (MGc)
5d: MAGNESIUM ION (MGd)
5e: MAGNESIUM ION (MGe)
5f: MAGNESIUM ION (MGf)
5g: MAGNESIUM ION (MGg)
5h: MAGNESIUM ION (MGh)
5i: MAGNESIUM ION (MGi)
5j: MAGNESIUM ION (MGj)
6a: PHOSPHATE ION (PO4a)
6b: PHOSPHATE ION (PO4b)
7a: 3,5,7,3',4'-PENTAHYDROXYFLAVONE (QUEa)
7b: 3,5,7,3',4'-PENTAHYDROXYFLAVONE (QUEb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
1
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
ANP
4
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
3
AZI
1
Ligand/Ion
AZIDE ION
4
GOL
6
Ligand/Ion
GLYCEROL
5
MG
-1
Ligand/Ion
MAGNESIUM ION
6
PO4
1
Ligand/Ion
PHOSPHATE ION
7
QUE
1
Ligand/Ion
3,5,7,3',4'-PENTAHYDROXYFLAVONE
[
close Hetero Component info
]
Sites
(19, 19)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:171 , GLN A:172 , THR A:173 , GLY A:174 , LYS A:175 , THR A:176 , SER A:177 , PHE A:357 , PRO A:363 , GLN A:430 , GLN A:432 , MG A:1512 , HOH A:2173 , HOH A:2174 , HOH A:2175 , HOH A:2176 , HOH A:2177 , HOH A:2179 , HOH A:2180 , HOH D:2154
BINDING SITE FOR RESIDUE ANP A1511
02
AC2
SOFTWARE
THR A:176 , ANP A:1511 , HOH A:2060 , HOH A:2093 , HOH A:2175
BINDING SITE FOR RESIDUE MG A1512
03
AC3
SOFTWARE
GLY A:130 , TYR A:244 , LEU A:245 , TYR A:248 , ARG A:304
BINDING SITE FOR RESIDUE GOL A1513
04
AC4
SOFTWARE
ARG A:291 , TYR A:294 , PRO A:295 , GLY A:296 , TYR A:337 , SER E:266 , GLY E:280
BINDING SITE FOR RESIDUE GOL A1514
05
AC5
SOFTWARE
ARG B:171 , GLN B:172 , THR B:173 , GLY B:174 , LYS B:175 , THR B:176 , SER B:177 , PHE B:357 , ARG B:362 , GLN B:430 , GLY B:431 , GLN B:432 , MG B:1511 , HOH B:2075 , HOH B:2148 , HOH B:2149 , HOH B:2151 , ARG E:356 , ASP E:359
BINDING SITE FOR RESIDUE ANP B1510
06
AC6
SOFTWARE
THR B:176 , ANP B:1510 , HOH B:2055 , HOH B:2075 , HOH B:2149
BINDING SITE FOR RESIDUE MG B1511
07
AC7
SOFTWARE
VAL B:129 , GLY B:130 , TYR B:244 , TYR B:248 , ARG B:304 , HOH B:2152 , HOH B:2153
BINDING SITE FOR RESIDUE GOL B1512
08
AC8
SOFTWARE
GLY B:290 , ARG B:291 , TYR B:294 , TYR B:337 , HOH B:2090 , SER F:266 , VAL F:279
BINDING SITE FOR RESIDUE GOL B1513
09
AC9
SOFTWARE
ARG C:171 , GLN C:172 , THR C:173 , GLY C:174 , LYS C:175 , THR C:176 , SER C:177 , PHE C:357 , ARG C:362 , GLN C:430 , GLN C:432 , MG C:1512 , HOH C:2073 , HOH C:2108 , HOH C:2222 , HOH C:2223 , HOH C:2224 , HOH C:2225 , HOH C:2226 , HOH C:2227 , HOH C:2228 , TYR F:368
BINDING SITE FOR RESIDUE ANP C1511
10
BC1
SOFTWARE
THR C:176 , ANP C:1511 , HOH C:2076 , HOH C:2108 , HOH C:2224
BINDING SITE FOR RESIDUE MG C1512
11
BC2
SOFTWARE
MET C:62 , VAL C:129 , GLY C:130 , TYR C:244 , TYR C:248 , ARG C:304 , HOH C:2229
BINDING SITE FOR RESIDUE GOL C1513
12
BC3
SOFTWARE
SER C:372 , ARG C:373 , GLY D:157 , GLY D:159 , VAL D:160 , GLY D:161 , LYS D:162 , THR D:163 , VAL D:164 , TYR D:345 , PHE D:418 , ALA D:421 , PHE D:424 , THR D:425 , MG D:1477 , AZI D:1478 , HOH D:2071 , HOH D:2175 , HOH D:2176 , HOH D:2177 , HOH D:2178
BINDING SITE FOR RESIDUE ADP D1476
13
BC4
SOFTWARE
THR D:163 , ASP D:256 , ADP D:1476 , HOH D:2069 , HOH D:2071 , HOH D:2093 , HOH D:2176
BINDING SITE FOR RESIDUE MG D1477
14
BC5
SOFTWARE
SER C:344 , ARG C:373 , HOH C:2153 , ALA D:158 , GLY D:159 , LYS D:162 , TYR D:311 , ADP D:1476 , HOH D:2176 , HOH D:2179
BINDING SITE FOR RESIDUE AZI D1478
15
BC6
SOFTWARE
ARG D:231 , GLY D:265 , ARG D:274
BINDING SITE FOR RESIDUE GOL D1479
16
BC7
SOFTWARE
GLY E:157 , ALA E:158 , GLY E:159 , LYS E:162 , THR E:163 , HOH E:2043 , HOH E:2044
BINDING SITE FOR RESIDUE PO4 E1475
17
BC8
SOFTWARE
ILE B:343 , SER B:344 , VAL B:371 , ARG B:373 , ALA F:158 , GLY F:159 , VAL F:160 , GLY F:161 , LYS F:162 , THR F:163 , VAL F:164 , ARG F:189 , TYR F:345 , PHE F:418 , ALA F:421 , PHE F:424 , THR F:425 , MG F:1476 , HOH F:2079 , HOH F:2100 , HOH F:2202 , HOH F:2203 , HOH F:2204 , HOH F:2205
BINDING SITE FOR RESIDUE ANP F1475
18
BC9
SOFTWARE
THR F:163 , ANP F:1475 , HOH F:2079 , HOH F:2100 , HOH F:2202
BINDING SITE FOR RESIDUE MG F1476
19
CC1
SOFTWARE
ARG B:291 , GLU B:292 , HOH B:2091 , GLU C:292 , ALA C:293 , VAL F:279 , HOH F:2139 , ALA G:256 , THR G:259 , LYS G:260 , ILE G:263 , HOH G:2039 , HOH G:2040
BINDING SITE FOR RESIDUE QUE G1273
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 7)
Info
All PROSITE Patterns/Profiles
1: ATPASE_GAMMA (G:258-271)
2: ATPASE_ALPHA_BETA (D:346-355,E:346-355,F:346-355)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ATPASE_GAMMA
PS00153
ATP synthase gamma subunit signature.
ATPG_BOVIN
283-296
1
G:258-271
-
2
ATPASE_ALPHA_BETA
PS00152
ATP synthase alpha and beta subunits signature.
ATPB_BOVIN
396-405
3
D:346-355
E:346-355
F:346-355
-
-
-
ATPA_BOVIN
406-415
3
A:363-372
B:363-372
C:363-372
-
-
-
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
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Label:
All Exon Boundaries
View:
Label:
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
(7, 38)
Info
All SCOP Domains
1a: SCOP_d2jj2a3 (A:380-510)
1b: SCOP_d2jj2b3 (B:380-509)
1c: SCOP_d2jj2c3 (C:380-510)
1d: SCOP_d2jj2h3 (H:380-510)
1e: SCOP_d2jj2i3 (I:380-509)
1f: SCOP_d2jj2j3 (J:380-510)
2a: SCOP_d2jj2d3 (D:358-475)
2b: SCOP_d2jj2e3 (E:358-474)
2c: SCOP_d2jj2f3 (F:358-474)
2d: SCOP_d2jj2k3 (K:358-475)
2e: SCOP_d2jj2l3 (L:358-474)
2f: SCOP_d2jj2m3 (M:358-474)
3a: SCOP_d2jj2a1 (A:24-94)
3b: SCOP_d2jj2b1 (B:23-94)
3c: SCOP_d2jj2c1 (C:16-94)
3d: SCOP_d2jj2h1 (H:24-94)
3e: SCOP_d2jj2i1 (I:23-94)
3f: SCOP_d2jj2j1 (J:16-94)
4a: SCOP_d2jj2d1 (D:9-81)
4b: SCOP_d2jj2e1 (E:9-81)
4c: SCOP_d2jj2f1 (F:9-81)
4d: SCOP_d2jj2k1 (K:9-81)
4e: SCOP_d2jj2l1 (L:9-81)
4f: SCOP_d2jj2m1 (M:9-81)
5a: SCOP_d2jj2a2 (A:95-379)
5b: SCOP_d2jj2b2 (B:95-379)
5c: SCOP_d2jj2c2 (C:95-379)
5d: SCOP_d2jj2h2 (H:95-379)
5e: SCOP_d2jj2i2 (I:95-379)
5f: SCOP_d2jj2j2 (J:95-379)
6a: SCOP_d2jj2d2 (D:82-357)
6b: SCOP_d2jj2e2 (E:82-357)
6c: SCOP_d2jj2f2 (F:82-357)
6d: SCOP_d2jj2k2 (K:82-357)
6e: SCOP_d2jj2l2 (L:82-357)
6f: SCOP_d2jj2m2 (M:82-357)
7a: SCOP_d2jj2g_ (G:)
7b: SCOP_d2jj2n_ (N:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Left-handed superhelix
(73)
Superfamily
:
C-terminal domain of alpha and beta subunits of F1 ATP synthase
(55)
Family
:
automated matches
(14)
Protein domain
:
automated matches
(14)
Cow (Bos taurus) [TaxId: 9913]
(5)
1a
d2jj2a3
A:380-510
1b
d2jj2b3
B:380-509
1c
d2jj2c3
C:380-510
1d
d2jj2h3
H:380-510
1e
d2jj2i3
I:380-509
1f
d2jj2j3
J:380-510
Family
:
C-terminal domain of alpha and beta subunits of F1 ATP synthase
(41)
Protein domain
:
F1 ATP synthase beta subunit, domain 3
(22)
Cow (Bos taurus) [TaxId: 9913]
(18)
2a
d2jj2d3
D:358-475
2b
d2jj2e3
E:358-474
2c
d2jj2f3
F:358-474
2d
d2jj2k3
K:358-475
2e
d2jj2l3
L:358-474
2f
d2jj2m3
M:358-474
Class
:
All beta proteins
(24004)
Fold
:
Domain of alpha and beta subunits of F1 ATP synthase-like
(89)
Superfamily
:
N-terminal domain of alpha and beta subunits of F1 ATP synthase
(55)
Family
:
automated matches
(14)
Protein domain
:
automated matches
(14)
Cow (Bos taurus) [TaxId: 9913]
(5)
3a
d2jj2a1
A:24-94
3b
d2jj2b1
B:23-94
3c
d2jj2c1
C:16-94
3d
d2jj2h1
H:24-94
3e
d2jj2i1
I:23-94
3f
d2jj2j1
J:16-94
Family
:
N-terminal domain of alpha and beta subunits of F1 ATP synthase
(41)
Protein domain
:
F1 ATP synthase beta subunit, domain 1
(22)
Cow (Bos taurus) [TaxId: 9913]
(18)
4a
d2jj2d1
D:9-81
4b
d2jj2e1
E:9-81
4c
d2jj2f1
F:9-81
4d
d2jj2k1
K:9-81
4e
d2jj2l1
L:9-81
4f
d2jj2m1
M:9-81
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
RecA protein-like (ATPase-domain)
(159)
Protein domain
:
automated matches
(32)
Cow (Bos taurus) [TaxId: 9913]
(5)
5a
d2jj2a2
A:95-379
5b
d2jj2b2
B:95-379
5c
d2jj2c2
C:95-379
5d
d2jj2h2
H:95-379
5e
d2jj2i2
I:95-379
5f
d2jj2j2
J:95-379
Protein domain
:
Central domain of beta subunit of F1 ATP synthase
(22)
Cow (Bos taurus) [TaxId: 9913]
(18)
6a
d2jj2d2
D:82-357
6b
d2jj2e2
E:82-357
6c
d2jj2f2
F:82-357
6d
d2jj2k2
K:82-357
6e
d2jj2l2
L:82-357
6f
d2jj2m2
M:82-357
Fold
:
Pyruvate kinase C-terminal domain-like
(59)
Superfamily
:
ATP synthase (F1-ATPase), gamma subunit
(29)
Family
:
ATP synthase (F1-ATPase), gamma subunit
(22)
Protein domain
:
ATP synthase (F1-ATPase), gamma subunit
(22)
Cow (Bos taurus) [TaxId: 9913]
(19)
7a
d2jj2g_
G:
7b
d2jj2n_
N:
[
close SCOP info
]
CATH Domains
(7, 40)
Info
all CATH domains
1a: CATH_2jj2G02 (G:26-231)
1b: CATH_2jj2N02 (N:26-231)
2a: CATH_2jj2D02 (D:82-357)
2b: CATH_2jj2E02 (E:82-357)
2c: CATH_2jj2F02 (F:82-357)
2d: CATH_2jj2K02 (K:82-357)
2e: CATH_2jj2L02 (L:82-357)
2f: CATH_2jj2M02 (M:82-357)
2g: CATH_2jj2A02 (A:94-379)
2h: CATH_2jj2B02 (B:94-379)
2i: CATH_2jj2C02 (C:94-379)
2j: CATH_2jj2H02 (H:94-379)
2k: CATH_2jj2I02 (I:94-379)
2l: CATH_2jj2J02 (J:94-379)
3a: CATH_2jj2E03 (E:358-474)
3b: CATH_2jj2F03 (F:358-474)
3c: CATH_2jj2L03 (L:358-474)
3d: CATH_2jj2M03 (M:358-474)
3e: CATH_2jj2D03 (D:358-475)
3f: CATH_2jj2K03 (K:358-475)
4a: CATH_2jj2G01 (G:1-25,G:232-267)
4b: CATH_2jj2N01 (N:1-25,N:232-267)
5a: CATH_2jj2A03 (A:380-510)
5b: CATH_2jj2C03 (C:380-510)
5c: CATH_2jj2H03 (H:380-510)
5d: CATH_2jj2J03 (J:380-510)
5e: CATH_2jj2B03 (B:380-509)
5f: CATH_2jj2I03 (I:380-509)
6a: CATH_2jj2A01 (A:24-93)
6b: CATH_2jj2B01 (B:24-93)
6c: CATH_2jj2C01 (C:24-93)
6d: CATH_2jj2H01 (H:24-93)
6e: CATH_2jj2I01 (I:24-93)
6f: CATH_2jj2J01 (J:24-93)
7a: CATH_2jj2D01 (D:9-81)
7b: CATH_2jj2E01 (E:9-81)
7c: CATH_2jj2F01 (F:9-81)
7d: CATH_2jj2K01 (K:9-81)
7e: CATH_2jj2L01 (L:9-81)
7f: CATH_2jj2M01 (M:9-81)
View:
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Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Pyruvate Kinase; Chain: A, domain 1
(36)
Homologous Superfamily
:
[code=3.40.1380.10, no name defined]
(14)
Bovine (Bos taurus)
(12)
1a
2jj2G02
G:26-231
1b
2jj2N02
N:26-231
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Bovine (Bos taurus)
(17)
2a
2jj2D02
D:82-357
2b
2jj2E02
E:82-357
2c
2jj2F02
F:82-357
2d
2jj2K02
K:82-357
2e
2jj2L02
L:82-357
2f
2jj2M02
M:82-357
2g
2jj2A02
A:94-379
2h
2jj2B02
B:94-379
2i
2jj2C02
C:94-379
2j
2jj2H02
H:94-379
2k
2jj2I02
I:94-379
2l
2jj2J02
J:94-379
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Bovine Mitochondrial F1-ATPase, ATP Synthase Beta Chain; Chain D, domain3
(32)
Homologous Superfamily
:
Bovine Mitochondrial F1-atpase; Atp Synthase Beta Chain; Chain D, domain 3
(32)
Bovine (Bos taurus)
(17)
3a
2jj2E03
E:358-474
3b
2jj2F03
F:358-474
3c
2jj2L03
L:358-474
3d
2jj2M03
M:358-474
3e
2jj2D03
D:358-475
3f
2jj2K03
K:358-475
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.80, no name defined]
(43)
Bovine (Bos taurus)
(13)
4a
2jj2G01
G:1-25,G:232-267
4b
2jj2N01
N:1-25,N:232-267
Architecture
:
Up-down Bundle
(3216)
Topology
:
Lysin
(39)
Homologous Superfamily
:
[code=1.20.150.20, no name defined]
(33)
Bovine (Bos taurus)
(17)
5a
2jj2A03
A:380-510
5b
2jj2C03
C:380-510
5c
2jj2H03
H:380-510
5d
2jj2J03
J:380-510
5e
2jj2B03
B:380-509
5f
2jj2I03
I:380-509
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Elongation Factor Tu (Ef-tu); domain 3
(323)
Homologous Superfamily
:
[code=2.40.30.20, no name defined]
(40)
Bovine (Bos taurus)
(17)
6a
2jj2A01
A:24-93
6b
2jj2B01
B:24-93
6c
2jj2C01
C:24-93
6d
2jj2H01
H:24-93
6e
2jj2I01
I:24-93
6f
2jj2J01
J:24-93
Topology
:
Thrombin, subunit H
(1535)
Homologous Superfamily
:
[code=2.40.10.170, no name defined]
(33)
Bovine (Bos taurus)
(17)
7a
2jj2D01
D:9-81
7b
2jj2E01
E:9-81
7c
2jj2F01
F:9-81
7d
2jj2K01
K:9-81
7e
2jj2L01
L:9-81
7f
2jj2M01
M:9-81
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