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2AGV
Asym. Unit
Info
Asym.Unit (329 KB)
Biol.Unit 1 (322 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE SR CA2+-ATPASE WITH BHQ AND TG
Authors
:
C. Toyoshima, K. Obara, Y. Norimatsu
Date
:
27 Jul 05 (Deposition) - 25 Oct 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Membrane Protein, P-Type Atpase, Had Fold, Hydrolase, Hydrolase- Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Obara, N. Miyashita, C. Xu, I. Toyoshima, Y. Sugita, G. Inesi, C. Toyoshima
Inaugural Article: Structural Role Of Countertransport Revealed In Ca2+ Pump Crystal Structure In The Absence Of Ca2+.
Proc. Natl. Acad. Sci. Usa V. 102 14489 2005
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 12)
Info
All Hetero Components
1a: 2,5-DITERT-BUTYLBENZENE-1,4-DIOL (BHQa)
1b: 2,5-DITERT-BUTYLBENZENE-1,4-DIOL (BHQb)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
3a: PHOSPHATIDYLETHANOLAMINE (PTYa)
3b: PHOSPHATIDYLETHANOLAMINE (PTYb)
3c: PHOSPHATIDYLETHANOLAMINE (PTYc)
3d: PHOSPHATIDYLETHANOLAMINE (PTYd)
3e: PHOSPHATIDYLETHANOLAMINE (PTYe)
3f: PHOSPHATIDYLETHANOLAMINE (PTYf)
4a: OCTANOIC ACID [3S-[3ALPHA, 3ABETA,... (TG1a)
4b: OCTANOIC ACID [3S-[3ALPHA, 3ABETA,... (TG1b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BHQ
2
Ligand/Ion
2,5-DITERT-BUTYLBENZENE-1,4-DIOL
2
NA
2
Ligand/Ion
SODIUM ION
3
PTY
6
Ligand/Ion
PHOSPHATIDYLETHANOLAMINE
4
TG1
2
Ligand/Ion
OCTANOIC ACID [3S-[3ALPHA, 3ABETA, 4ALPHA, 6BETA,6ABETA, 7BETA, 8ALPHA(Z), 9BALPHA]]-6-(ACETYLOXY)-2,3,-3A,4,5,6,6A,7,8,9B-DECAHYDRO-3,3A-DIHYDROXY-3,6,9-TRIMETHYL-8-[(2-METHYL-1-OXO-2-BUTENYL)OXY]-2-OXO-4-(1-OXOBUTOXY)-AZULENO[4,5-B]FURAN-7-YL ESTER
[
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]
Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:711 , LYS A:712 , ALA A:714 , GLY A:717 , GLU A:732 , HOH A:2095 , HOH A:2097
BINDING SITE FOR RESIDUE NA A 1000
02
AC2
SOFTWARE
LEU B:711 , LYS B:712 , ALA B:714 , GLY B:717 , GLU B:732 , HOH B:3095 , HOH B:3097
BINDING SITE FOR RESIDUE NA B 1100
03
AC3
SOFTWARE
LEU A:253 , GLU A:255 , GLN A:259 , LEU A:260 , VAL A:263 , ILE A:267 , ALA A:306 , ILE A:765 , VAL A:772 , ILE A:829 , PHE A:834 , TYR A:837 , MET A:838
BINDING SITE FOR RESIDUE TG1 A 1003
04
AC4
SOFTWARE
ASP A:59 , VAL A:62 , LEU A:65 , PHE A:256 , PRO A:308 , LEU A:311 , PRO A:312
BINDING SITE FOR RESIDUE BHQ A 1004
05
AC5
SOFTWARE
GLN A:108 , PRO A:312 , ALA A:313 , THR A:316
BINDING SITE FOR RESIDUE PTY A 1011
06
AC6
SOFTWARE
SER A:921 , MET A:923 , PHE A:986 , ARG A:989 , ASN A:990
BINDING SITE FOR RESIDUE PTY A 1012
07
AC7
SOFTWARE
ILE A:274 , ASN A:275 , ALA A:780 , LEU B:922 , MET B:923 , TRP B:928
BINDING SITE FOR RESIDUE PTY A 1013
08
AC8
SOFTWARE
LEU B:253 , GLU B:255 , GLN B:259 , LEU B:260 , VAL B:263 , ILE B:267 , ALA B:306 , ILE B:765 , VAL B:772 , LEU B:828 , ILE B:829 , PHE B:834 , TYR B:837 , MET B:838
BINDING SITE FOR RESIDUE TG1 B 1103
09
AC9
SOFTWARE
ASP B:59 , VAL B:62 , LEU B:65 , PHE B:256 , PRO B:308 , LEU B:311 , PRO B:312
BINDING SITE FOR RESIDUE BHQ B 1104
10
BC1
SOFTWARE
GLN B:108 , ALA B:313 , THR B:316
BINDING SITE FOR RESIDUE PTY B 1111
11
BC2
SOFTWARE
SER B:921 , MET B:923 , PHE B:986 , ARG B:989 , ASN B:990
BINDING SITE FOR RESIDUE PTY B 1112
12
BC3
SOFTWARE
LEU A:922 , MET A:923 , TRP A:928 , ILE B:274 , ASN B:275 , ALA B:780
BINDING SITE FOR RESIDUE PTY B 1113
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ATPASE_E1_E2 (A:351-357,B:351-357)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ATPASE_E1_E2
PS00154
E1-E2 ATPases phosphorylation site.
AT2A1_RABIT
351-357
2
A:351-357
B:351-357
[
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(4, 8)
Info
All SCOP Domains
1a: SCOP_d2agva2 (A:125-239)
1b: SCOP_d2agvb2 (B:125-239)
2a: SCOP_d2agva4 (A:361-599)
2b: SCOP_d2agvb4 (B:361-599)
3a: SCOP_d2agva3 (A:344-360,A:600-750)
3b: SCOP_d2agvb3 (B:344-360,B:600-750)
4a: SCOP_d2agva1 (A:1-124,A:240-343,A:751-994)
4b: SCOP_d2agvb1 (B:1-124,B:240-343,B:751-994)
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)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Double-stranded beta-helix
(580)
Superfamily
:
Calcium ATPase, transduction domain A
(37)
Family
:
Calcium ATPase, transduction domain A
(37)
Protein domain
:
Calcium ATPase, transduction domain A
(37)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(37)
1a
d2agva2
A:125-239
1b
d2agvb2
B:125-239
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Metal cation-transporting ATPase, ATP-binding domain N
(45)
Superfamily
:
Metal cation-transporting ATPase, ATP-binding domain N
(45)
Family
:
Metal cation-transporting ATPase, ATP-binding domain N
(45)
Protein domain
:
Calcium ATPase
(37)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(37)
2a
d2agva4
A:361-599
2b
d2agvb4
B:361-599
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
HAD-like
(349)
Superfamily
:
HAD-like
(349)
Family
:
Meta-cation ATPase, catalytic domain P
(38)
Protein domain
:
Calcium ATPase, catalytic domain P
(37)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(37)
3a
d2agva3
A:344-360,A:600-750
3b
d2agvb3
B:344-360,B:600-750
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
Calcium ATPase, transmembrane domain M
(37)
Superfamily
:
Calcium ATPase, transmembrane domain M
(37)
Family
:
Calcium ATPase, transmembrane domain M
(37)
Protein domain
:
Calcium ATPase, transmembrane domain M
(37)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(37)
4a
d2agva1
A:1-124,A:240-343,A:751-994
4b
d2agvb1
B:1-124,B:240-343,B:751-994
[
close SCOP info
]
CATH Domains
(4, 8)
Info
all CATH domains
1a: CATH_2agvA04 (A:359-602)
1b: CATH_2agvB04 (B:359-602)
2a: CATH_2agvA03 (A:346-358,A:603-745)
2b: CATH_2agvB03 (B:346-358,B:603-745)
3a: CATH_2agvA02 (A:55-112,A:241-345,A:746-994)
3b: CATH_2agvB02 (B:55-112,B:241-345,B:746-994)
4a: CATH_2agvA01 (A:12-54,A:113-240)
4b: CATH_2agvB01 (B:12-54,B:113-240)
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Calcium-transporting ATPase, cytoplasmic domain N
(43)
Homologous Superfamily
:
Calcium-transporting ATPase, cytoplasmic domain N
(43)
Rabbit (Oryctolagus cuniculus)
(31)
1a
2agvA04
A:359-602
1b
2agvB04
B:359-602
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1000, no name defined]
(211)
Rabbit (Oryctolagus cuniculus)
(31)
2a
2agvA03
A:346-358,A:603-745
2b
2agvB03
B:346-358,B:603-745
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Calcium-transporting ATPase, transmembrane domain
(36)
Homologous Superfamily
:
Calcium-transporting ATPase, transmembrane domain
(36)
Rabbit (Oryctolagus cuniculus)
(31)
3a
2agvA02
A:55-112,A:241-345,A:746-994
3b
2agvB02
B:55-112,B:241-345,B:746-994
Class
:
Mainly Beta
(13760)
Architecture
:
Distorted Sandwich
(506)
Topology
:
Calcium-transporting ATPase, cytoplasmic transduction domain A
(35)
Homologous Superfamily
:
Calcium-transporting ATPase, cytoplasmic transduction domain A
(35)
Rabbit (Oryctolagus cuniculus)
(31)
4a
2agvA01
A:12-54,A:113-240
4b
2agvB01
B:12-54,B:113-240
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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