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3KDP
Asym. Unit
Info
Asym.Unit (914 KB)
Biol.Unit 1 (456 KB)
Biol.Unit 2 (456 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE SODIUM-POTASSIUM PUMP
Authors
:
J. P. Morth, B. P. Pedersen, P. Nissen
Date
:
23 Oct 09 (Deposition) - 16 Feb 10 (Release) - 15 Jun 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.50
Chains
:
Asym. Unit : A,B,C,D,G,H
Biol. Unit 1: A,B,G (1x)
Biol. Unit 2: C,D,H (1x)
Keywords
:
Alpha Helical, Heterotrimeric Membrane Protein Complex, Atp-Binding, Hydrolase, Ion Transport, Magnesium, Membrane, Metal-Binding, Nucleotide-Binding, Phosphoprotein, Potassium, Potassium Transport, Sodium Transport, Sodium/Potassium Transport, Transmembrane, Transport, Disulfide Bond, Glycoprotein, Signal-Anchor
(Keyword Search:
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Reference
:
J. P. Morth, B. P. Pedersen, M. S. Toustrup-Jensen, T. L. Sorensen, J. Petersen, J. P. Andersen, B. Vilsen, P. Nissen
Crystal Structure Of The Sodium-Potassium Pump.
Nature V. 450 1043 2007
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Hetero Components
(4, 12)
Info
All Hetero Components
1a: CHOLESTEROL (CLRa)
1b: CHOLESTEROL (CLRb)
2a: TETRAFLUOROMAGNESATE(2-) (MF4a)
2b: TETRAFLUOROMAGNESATE(2-) (MF4b)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
4a: RUBIDIUM ION (RBa)
4b: RUBIDIUM ION (RBb)
4c: RUBIDIUM ION (RBc)
4d: RUBIDIUM ION (RBd)
4e: RUBIDIUM ION (RBe)
4f: RUBIDIUM ION (RBf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CLR
2
Ligand/Ion
CHOLESTEROL
2
MF4
2
Ligand/Ion
TETRAFLUOROMAGNESATE(2-)
3
MG
2
Ligand/Ion
MAGNESIUM ION
4
RB
6
Ligand/Ion
RUBIDIUM ION
[
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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:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:212 , GLY A:213 , GLU A:214 , ASP A:369 , LYS A:370 , THR A:371 , THR A:610 , GLY A:611 , LYS A:691 , ASN A:713 , MG A:2002
BINDING SITE FOR RESIDUE MF4 A 2001
02
AC2
SOFTWARE
ASP A:369 , THR A:371 , ASP A:710 , MF4 A:2001
BINDING SITE FOR RESIDUE MG A 2002
03
AC3
SOFTWARE
THR A:772 , SER A:775 , ASN A:776 , GLU A:779 , ILE A:803 , ASP A:804
BINDING SITE FOR RESIDUE RB A 2003
04
AC4
SOFTWARE
VAL A:322 , VAL A:325 , GLU A:327 , ASN A:776 , GLU A:779 , ASP A:804
BINDING SITE FOR RESIDUE RB A 2004
05
AC5
SOFTWARE
ALA A:721 , ASP A:740
BINDING SITE FOR RESIDUE RB A 2005
06
AC6
SOFTWARE
SER A:844 , ILE B:35 , TYR B:39 , TYR B:43
BINDING SITE FOR RESIDUE CLR B 3001
07
AC7
SOFTWARE
THR C:212 , GLY C:213 , GLU C:214 , ASP C:369 , LYS C:370 , THR C:371 , THR C:610 , GLY C:611 , LYS C:691 , ASN C:713 , MG C:2002
BINDING SITE FOR RESIDUE MF4 C 2001
08
AC8
SOFTWARE
ASP C:369 , THR C:371 , ASP C:710 , MF4 C:2001
BINDING SITE FOR RESIDUE MG C 2002
09
AC9
SOFTWARE
THR C:772 , SER C:775 , ASN C:776 , GLU C:779 , ASP C:804
BINDING SITE FOR RESIDUE RB C 2003
10
BC1
SOFTWARE
VAL C:322 , VAL C:325 , GLU C:327 , ASN C:776 , GLU C:779 , ASP C:804
BINDING SITE FOR RESIDUE RB C 2004
11
BC2
SOFTWARE
ALA C:721 , ASP C:740
BINDING SITE FOR RESIDUE RB C 2005
12
BC3
SOFTWARE
MET C:852 , TYR D:39 , TYR D:43
BINDING SITE FOR RESIDUE CLR D 3001
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: ATPASE_NA_K_BETA_2 (B:146-161,D:146-161)
2: ATPASE_E1_E2 (A:369-375,C:369-375)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ATPASE_NA_K_BETA_2
PS00391
Sodium and potassium ATPases beta subunits signature 2.
AT1B1_PIG
146-161
2
B:146-161
D:146-161
2
ATPASE_E1_E2
PS00154
E1-E2 ATPases phosphorylation site.
AT1A1_PIG
374-380
2
A:369-375
C:369-375
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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
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(5, 10)
Info
all CATH domains
1a: CATH_3kdpA04 (A:377-587)
1b: CATH_3kdpC04 (C:377-587)
2a: CATH_3kdpA03 (A:364-376,A:588-748)
2b: CATH_3kdpC03 (C:364-376,C:588-748)
3a: CATH_3kdpA02 (A:87-140,A:270-363,A:749-1016)
3b: CATH_3kdpC02 (C:87-140,C:270-363,C:749-1016)
4a: CATH_3kdpA01 (A:19-70,A:150-269)
4b: CATH_3kdpC01 (C:19-70,C:150-269)
5a: CATH_3kdpB02 (B:62-303)
5b: CATH_3kdpD02 (D:62-303)
View:
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Classes
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)
(
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(
)
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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)
Pig (Sus scrofa)
(3)
1a
3kdpA04
A:377-587
1b
3kdpC04
C:377-587
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1000, no name defined]
(211)
Pig (Sus scrofa)
(2)
2a
3kdpA03
A:364-376,A:588-748
2b
3kdpC03
C:364-376,C:588-748
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Calcium-transporting ATPase, transmembrane domain
(36)
Homologous Superfamily
:
Calcium-transporting ATPase, transmembrane domain
(36)
Pig (Sus scrofa)
(2)
3a
3kdpA02
A:87-140,A:270-363,A:749-1016
3b
3kdpC02
C:87-140,C:270-363,C:749-1016
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)
Pig (Sus scrofa)
(2)
4a
3kdpA01
A:19-70,A:150-269
4b
3kdpC01
C:19-70,C:150-269
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Na, k-atpase alpha subunit.
(3)
Pig (Sus scrofa)
(1)
5a
3kdpB02
B:62-303
5b
3kdpD02
D:62-303
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Pfam Domains
(6, 12)
Info
all PFAM domains
1a: PFAM_Hydrolase_3kdpC01 (C:363-722)
1b: PFAM_Hydrolase_3kdpC02 (C:363-722)
2a: PFAM_ATP1G1_PLM_MAT8_3kdpH01 (H:23-49)
2b: PFAM_ATP1G1_PLM_MAT8_3kdpH02 (H:23-49)
3a: PFAM_Cation_ATPase_C_3kdpC03 (C:792-1001)
3b: PFAM_Cation_ATPase_C_3kdpC04 (C:792-1001)
4a: PFAM_Cation_ATPase_N_3kdpC05 (C:36-104)
4b: PFAM_Cation_ATPase_N_3kdpC06 (C:36-104)
5a: PFAM_E1_E2_ATPase_3kdpC07 (C:128-359)
5b: PFAM_E1_E2_ATPase_3kdpC08 (C:128-359)
6a: PFAM_Na_K_ATPase_3kdpD01 (D:18-298)
6b: PFAM_Na_K_ATPase_3kdpD02 (D:18-298)
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Clans
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)
(
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Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
HAD
(186)
Family
:
Hydrolase
(64)
Sus scrofa (Pig)
(3)
1a
Hydrolase-3kdpC01
C:363-722
1b
Hydrolase-3kdpC02
C:363-722
Clan
:
no clan defined [family: ATP1G1_PLM_MAT8]
(5)
Family
:
ATP1G1_PLM_MAT8
(5)
Sus scrofa (Pig)
(2)
2a
ATP1G1_PLM_MAT8-3kdpH01
H:23-49
2b
ATP1G1_PLM_MAT8-3kdpH02
H:23-49
Clan
:
no clan defined [family: Cation_ATPase_C]
(21)
Family
:
Cation_ATPase_C
(21)
Sus scrofa (Pig)
(3)
3a
Cation_ATPase_C-3kdpC03
C:792-1001
3b
Cation_ATPase_C-3kdpC04
C:792-1001
Clan
:
no clan defined [family: Cation_ATPase_N]
(22)
Family
:
Cation_ATPase_N
(22)
Sus scrofa (Pig)
(3)
4a
Cation_ATPase_N-3kdpC05
C:36-104
4b
Cation_ATPase_N-3kdpC06
C:36-104
Clan
:
no clan defined [family: E1-E2_ATPase]
(23)
Family
:
E1-E2_ATPase
(23)
Sus scrofa (Pig)
(3)
5a
E1-E2_ATPase-3kdpC07
C:128-359
5b
E1-E2_ATPase-3kdpC08
C:128-359
Clan
:
no clan defined [family: Na_K-ATPase]
(3)
Family
:
Na_K-ATPase
(3)
Sus scrofa (Pig)
(3)
6a
Na_K-ATPase-3kdpD01
D:18-298
6b
Na_K-ATPase-3kdpD02
D:18-298
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