PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
4RES
Biol. Unit 2
Info
Asym.Unit (916 KB)
Biol.Unit 1 (457 KB)
Biol.Unit 2 (457 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF THE NA,K-ATPASE E2P-BUFALIN COMPLEX WITH BOUND POTASSIUM
Authors
:
M. Laursen, L. Yatime, J. L. Gregersen, P. Nissen, N. U. Fedosova
Date
:
23 Sep 14 (Deposition) - 28 Jan 15 (Release) - 25 Feb 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.41
Chains
:
Asym. Unit : A,B,C,D,E,G
Biol. Unit 1: A,B,G (1x)
Biol. Unit 2: C,D,E (1x)
Keywords
:
Alpha-Helical Transmembrane Protein, Atpase, Sodium Ion Transport, Potassium Ion Transport, Atp Binding, Sodium Binding, Potassium Binding, Receptor For Cardiotonic Steroids, Phosphorylation, Glycosylation, Plasma Membrane, Multisubunit Complex, Trimeric Complex, Membrane Protein, Hydrolase-Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Laursen, J. L. Gregersen, L. Yatime, P. Nissen, N. U. Fedosova
Structures And Characterization Of Digoxin- And Bufalin-Bound Na+, K+-Atpase Compared With The Ouabain-Bound Complex.
Proc. Natl. Acad. Sci. Usa V. 112 1755 2015
[
close entry info
]
Hetero Components
(5, 7)
Info
All Hetero Components
1a: O-[(S)-({(2R)-2,3-BIS[(9Z)-OCTADEC... (17Fa)
2a: BUFALIN (BUFa)
2b: BUFALIN (BUFb)
3a: CHOLESTEROL (CLRa)
3b: CHOLESTEROL (CLRb)
4a: POTASSIUM ION (Ka)
4b: POTASSIUM ION (Kb)
4c: POTASSIUM ION (Kc)
4d: POTASSIUM ION (Kd)
4e: POTASSIUM ION (Ke)
4f: POTASSIUM ION (Kf)
5a: MAGNESIUM ION (MGa)
5b: MAGNESIUM ION (MGb)
6a: N-ACETYL-D-GLUCOSAMINE (NAGa)
6b: N-ACETYL-D-GLUCOSAMINE (NAGb)
6c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7a: ASPARTYL PHOSPHATE (PHDa)
7b: ASPARTYL PHOSPHATE (PHDb)
8a: SUCROSE (SUCa)
8b: SUCROSE (SUCb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
17F
-1
Ligand/Ion
O-[(S)-({(2R)-2,3-BIS[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL}OXY)(HYDROXY)PHOSPHORYL]-L-SERINE
2
BUF
1
Ligand/Ion
BUFALIN
3
CLR
1
Ligand/Ion
CHOLESTEROL
4
K
-1
Ligand/Ion
POTASSIUM ION
5
MG
-1
Ligand/Ion
MAGNESIUM ION
6
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
7
PHD
1
Mod. Amino Acid
ASPARTYL PHOSPHATE
8
SUC
2
Ligand/Ion
SUCROSE
[
close Hetero Component info
]
Sites
(10, 10)
Info
All Sites
01: AC7 (SOFTWARE)
02: AC8 (SOFTWARE)
03: AC9 (SOFTWARE)
04: BC1 (SOFTWARE)
05: BC2 (SOFTWARE)
06: BC3 (SOFTWARE)
07: BC4 (SOFTWARE)
08: BC5 (SOFTWARE)
09: BC6 (SOFTWARE)
10: BC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC7
SOFTWARE
LYS C:943 , ILE G:32 , PHE G:33
BINDING SITE FOR RESIDUE 17F G 1001
02
AC8
SOFTWARE
PRO A:978 , THR A:979 , PHE A:982 , TYR B:68 , PHE C:938 , GLY C:941 , MET C:942 , LYS C:943 , TYR G:21
BINDING SITE FOR RESIDUE SUC C 1101
03
AC9
SOFTWARE
GLN C:111 , GLU C:117 , ASP C:121 , LEU C:125 , ILE C:315 , GLY C:319 , VAL C:322 , ALA C:323 , GLU C:327 , PHE C:783 , THR C:797 , ILE C:800 , K C:1105
BINDING SITE FOR RESIDUE BUF C 1102
04
BC1
SOFTWARE
PHE A:938 , GLY A:941 , MET A:942 , LYS A:943 , PRO C:978 , THR C:979 , PHE C:982 , TYR D:68 , TYR E:21
BINDING SITE FOR RESIDUE SUC C 1103
05
BC2
SOFTWARE
THR C:772 , SER C:775 , ASN C:776 , ASP C:804
BINDING SITE FOR RESIDUE K C 1104
06
BC3
SOFTWARE
ALA C:323 , VAL C:325 , GLU C:327 , ASN C:776 , ASP C:804 , BUF C:1102
BINDING SITE FOR RESIDUE K C 1105
07
BC4
SOFTWARE
SER C:718 , LYS C:719 , ASP C:740
BINDING SITE FOR RESIDUE K C 1106
08
BC5
SOFTWARE
PHD C:369 , THR C:371 , ASP C:710
BINDING SITE FOR RESIDUE MG C 1107
09
BC6
SOFTWARE
TRP C:924 , TYR C:963 , PRO C:978 , TRP C:981 , PHE C:982 , VAL E:26 , GLY E:29 , GLY E:30 , PHE E:33
BINDING SITE FOR RESIDUE CLR E 101
10
BC8
SOFTWARE
ASN D:158 , GLU D:165 , GLU D:228 , PHE D:230 , GLN D:262
BINDING SITE FOR CHAIN D OF SUGAR BOUND TO ASN D 158 RESIDUES 1001 TO 1002
[
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
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
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
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain C
Chain D
Chain E
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (916 KB)
Header - Asym.Unit
Biol.Unit 1 (457 KB)
Header - Biol.Unit 1
Biol.Unit 2 (457 KB)
Header - Biol.Unit 2
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
4RES
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
