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Asym. Unit
Info
Asym.Unit (938 KB)
Biol.Unit 1 (464 KB)
Biol.Unit 2 (465 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A NA+-BOUND NA+,K+-ATPASE PRECEDING THE E1P STATE WITHOUT OLIGOMYCIN
Authors
:
R. Kanai, H. Ogawa, B. Vilsen, F. Cornelius, C. Toyoshima
Date
:
09 Aug 13 (Deposition) - 09 Oct 13 (Release) - 16 Oct 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,G
Biol. Unit 1: A,B,G (1x)
Biol. Unit 2: C,D,E (1x)
Keywords
:
Membrane Protein, Ion Pump, Atpase, Na+ Binding, Haloacid Dehydrogenease Superfamily, Phosphate Analogue, Atp-Binding, Ion Transport, Nucleotide-Binding, Phosphoprotein, Hydrolase-Transport Protein Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Kanai, H. Ogawa, B. Vilsen, F. Cornelius, C. Toyoshima
Crystal Structure Of A Na1-Bound Na1, K1-Atpase Preceding Th E1P State
Nature V. 502 201 2013
[
close entry info
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Hetero Components
(7, 34)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
2a: TETRAFLUOROALUMINATE ION (ALFa)
2b: TETRAFLUOROALUMINATE ION (ALFb)
3a: CHOLESTEROL (CLRa)
3b: CHOLESTEROL (CLRb)
3c: CHOLESTEROL (CLRc)
3d: CHOLESTEROL (CLRd)
3e: CHOLESTEROL (CLRe)
3f: CHOLESTEROL (CLRf)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
4d: MAGNESIUM ION (MGd)
6a: N-ACETYL-D-GLUCOSAMINE (NAGa)
6b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5a: SODIUM ION (NAa)
5b: SODIUM ION (NAb)
5c: SODIUM ION (NAc)
5d: SODIUM ION (NAd)
5e: SODIUM ION (NAe)
5f: SODIUM ION (NAf)
5g: SODIUM ION (NAg)
6h: SODIUM ION (NAh)
7a: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1a)
7b: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1b)
7c: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1c)
7d: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1d)
7e: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1e)
7f: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1f)
7g: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1g)
7h: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1h)
7i: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1i)
7j: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHO... (PC1j)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
2
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
ALF
2
Ligand/Ion
TETRAFLUOROALUMINATE ION
3
CLR
6
Ligand/Ion
CHOLESTEROL
4
MG
4
Ligand/Ion
MAGNESIUM ION
5
NA
8
Ligand/Ion
SODIUM ION
6
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
7
PC1
10
Ligand/Ion
1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
[
close Hetero Component info
]
Sites
(34, 34)
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)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ADP A:2004 , HOH A:2106
BINDING SITE FOR RESIDUE MG A 2001
02
AC2
SOFTWARE
ASP A:369 , LYS A:370 , THR A:371 , THR A:610 , GLY A:611 , LYS A:691 , ASN A:713 , MG A:2003 , ADP A:2004 , HOH A:2109
BINDING SITE FOR RESIDUE ALF A 2002
03
AC3
SOFTWARE
ASP A:369 , THR A:371 , ASP A:710 , GLY A:711 , ALF A:2002 , HOH A:2109
BINDING SITE FOR RESIDUE MG A 2003
04
AC4
SOFTWARE
THR A:371 , ASP A:443 , GLU A:446 , PHE A:475 , SER A:477 , LYS A:480 , LYS A:501 , GLY A:502 , ALA A:503 , ARG A:544 , VAL A:545 , LEU A:546 , THR A:610 , GLY A:611 , ASP A:612 , ARG A:685 , ASN A:713 , MG A:2001 , ALF A:2002 , HOH A:2109
BINDING SITE FOR RESIDUE ADP A 2004
05
AC5
SOFTWARE
VAL A:322 , ALA A:323 , ASN A:324 , VAL A:325 , GLU A:327 , ASP A:804 , HOH A:2101
BINDING SITE FOR RESIDUE NA A 2005
06
AC6
SOFTWARE
ALA A:323 , THR A:772 , SER A:775 , ASN A:776 , GLU A:779 , ASP A:808
BINDING SITE FOR RESIDUE NA A 2006
07
AC7
SOFTWARE
TYR A:771 , THR A:774 , SER A:775 , ASP A:808 , GLN A:923 , ASP A:926
BINDING SITE FOR RESIDUE NA A 2007
08
AC8
SOFTWARE
LYS A:719 , ALA A:721 , HOH A:2113
BINDING SITE FOR RESIDUE NA A 2008
09
AC9
SOFTWARE
PHE A:860 , GLU A:868 , THR A:979 , CYS A:983 , PRO A:986 , THR B:53 , VAL B:56 , PC1 C:2014
BINDING SITE FOR RESIDUE CLR A 2009
10
BC1
SOFTWARE
TRP A:924 , TYR A:963 , TRP A:981 , PHE A:985 , PC1 D:401 , VAL G:26 , PHE G:33
BINDING SITE FOR RESIDUE CLR A 2010
11
BC2
SOFTWARE
PHE A:284 , ILE A:287 , LYS A:836 , VAL A:838 , ASN A:839 , GLU A:840 , TYR A:847 , PC1 A:2014 , CLR B:3001
BINDING SITE FOR RESIDUE PC1 A 2011
12
BC3
SOFTWARE
VAL A:128 , PHE A:139 , TYR A:142 , LEU A:805 , TYR A:817 , ILE A:946 , PHE G:38 , ILE G:45
BINDING SITE FOR RESIDUE PC1 A 2012
13
BC4
SOFTWARE
GLN A:939 , PHE A:992 , VAL A:993 , GLU A:996 , LEU A:1000 , ARG A:1003 , PC1 B:3002 , CLR C:2010 , THR D:60 , PC1 D:401
BINDING SITE FOR RESIDUE PC1 A 2013
14
BC5
SOFTWARE
PHE A:294 , SER A:298 , ILE A:301 , PC1 A:2011 , LEU B:25
BINDING SITE FOR RESIDUE PC1 A 2014
15
BC6
SOFTWARE
THR A:781 , LEU A:784 , SER A:844 , GLY A:848 , PC1 A:2011 , ARG B:27 , TYR B:39 , TYR B:43
BINDING SITE FOR RESIDUE CLR B 3001
16
BC7
SOFTWARE
PHE A:982 , PC1 A:2013 , THR B:60 , TYR B:68 , TRP C:924 , PHE C:938 , GLN C:940 , GLY C:941 , MET C:942 , PHE C:985 , PRO C:986 , SER C:988 , LEU C:989 , CLR C:2011
BINDING SITE FOR RESIDUE PC1 B 3002
17
BC8
SOFTWARE
ASN B:158
BINDING SITE FOR RESIDUE NAG B 3003
18
BC9
SOFTWARE
ALF C:2002 , ADP C:2004 , HOH C:2105 , HOH C:2107
BINDING SITE FOR RESIDUE MG C 2001
19
CC1
SOFTWARE
ASP C:369 , THR C:371 , THR C:610 , GLY C:611 , LYS C:691 , ASN C:713 , MG C:2001 , MG C:2003 , ADP C:2004 , HOH C:2105
BINDING SITE FOR RESIDUE ALF C 2002
20
CC2
SOFTWARE
ASP C:369 , THR C:371 , ASP C:710 , ALF C:2002 , HOH C:2105
BINDING SITE FOR RESIDUE MG C 2003
21
CC3
SOFTWARE
THR C:371 , ASP C:443 , GLU C:446 , PHE C:475 , SER C:477 , LYS C:480 , GLN C:482 , LYS C:501 , GLY C:502 , ALA C:503 , ARG C:544 , LEU C:546 , THR C:610 , GLY C:611 , ASP C:612 , ARG C:685 , ASN C:713 , MG C:2001 , ALF C:2002 , HOH C:2107
BINDING SITE FOR RESIDUE ADP C 2004
22
CC4
SOFTWARE
VAL C:322 , ALA C:323 , VAL C:325 , GLU C:327 , ASP C:804 , NA C:2006
BINDING SITE FOR RESIDUE NA C 2005
23
CC5
SOFTWARE
ALA C:323 , SER C:775 , ASN C:776 , GLU C:779 , ASP C:804 , ASP C:808 , NA C:2005 , HOH C:2101
BINDING SITE FOR RESIDUE NA C 2006
24
CC6
SOFTWARE
TYR C:771 , THR C:772 , THR C:774 , SER C:775 , ASP C:808 , GLN C:923
BINDING SITE FOR RESIDUE NA C 2007
25
CC7
SOFTWARE
LYS C:719 , ALA C:721 , ASP C:740 , HOH C:2111
BINDING SITE FOR RESIDUE NA C 2008
26
CC8
SOFTWARE
THR C:781 , GLU C:840 , ARG D:27 , TYR D:39 , TYR D:43
BINDING SITE FOR RESIDUE CLR C 2009
27
CC9
SOFTWARE
PC1 A:2013 , PHE C:860 , GLU C:868 , THR C:979 , PRO C:986 , PC1 C:2014 , THR D:53 , VAL D:56
BINDING SITE FOR RESIDUE CLR C 2010
28
DC1
SOFTWARE
PC1 B:3002 , TRP C:924 , TYR C:963 , TRP C:981 , PHE C:985 , PC1 D:401 , VAL E:26 , GLY E:30 , PHE E:33
BINDING SITE FOR RESIDUE CLR C 2011
29
DC2
SOFTWARE
PHE C:284 , ILE C:287 , LYS C:836 , VAL C:838 , ASN C:839 , GLU C:840 , ILE C:843 , TYR C:847 , PC1 C:2015
BINDING SITE FOR RESIDUE PC1 C 2012
30
DC3
SOFTWARE
VAL C:128 , VAL C:132 , PHE C:139 , TYR C:142 , CYS C:802 , LEU C:805 , MET C:809 , TYR C:817
BINDING SITE FOR RESIDUE PC1 C 2013
31
DC4
SOFTWARE
PRO A:986 , CLR A:2009 , SER C:936 , VAL C:993 , GLU C:996 , LEU C:1000 , ARG C:1003 , CLR C:2010
BINDING SITE FOR RESIDUE PC1 C 2014
32
DC5
SOFTWARE
HIS C:283 , PHE C:294 , PC1 C:2012 , TRP D:12
BINDING SITE FOR RESIDUE PC1 C 2015
33
DC6
SOFTWARE
TRP A:924 , MET A:942 , PHE A:952 , THR A:955 , PHE A:985 , SER A:988 , CLR A:2010 , PC1 A:2013 , LYS C:977 , PRO C:978 , CLR C:2011 , TYR D:68 , TYR E:21 , PHE G:33
BINDING SITE FOR RESIDUE PC1 D 401
34
DC7
SOFTWARE
ASN D:158
BINDING SITE FOR RESIDUE NAG D 402
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: ATPASE_NA_K_BETA_1 (B:12-32,D:12-32)
2: ATPASE_NA_K_BETA_2 (B:146-161,D:146-161)
3: ATPASE_E1_E2 (A:369-375,C:369-375)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ATPASE_NA_K_BETA_1
PS00390
Sodium and potassium ATPases beta subunits signature 1.
AT1B1_PIG
12-32
2
B:12-32
D:12-32
2
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
3
ATPASE_E1_E2
PS00154
E1-E2 ATPases phosphorylation site.
AT1A1_PIG
374-380
2
A:369-375
C:369-375
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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Sorry, no Info available
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CATH Domains
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all CATH domains
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Sorry, no Info available
[
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Pfam Domains
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Sorry, no Info available
[
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