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.
PLEASE WAIT...
Getting 'Exon' information from database.
1ORQ
Asym. Unit
Info
Asym.Unit (111 KB)
Biol.Unit 1 (407 KB)
Biol.Unit 2 (810 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
X-RAY STRUCTURE OF A VOLTAGE-DEPENDENT POTASSIUM CHANNEL IN COMPLEX WITH AN FAB
Authors
:
Y. Jiang, A. Lee, J. Chen, V. Ruta, M. Cadene, B. T. Chait, R. Mackinnon
Date
:
14 Mar 03 (Deposition) - 06 May 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (4x)
Biol. Unit 2: A,B,C (8x)
Keywords
:
Potassium Channel, Voltage-Dependent, Kvap, Fab Complex, Membrane Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Jiang, A. Lee, J. Chen, V. Ruta, M. Cadene, B. T. Chait, R. Mackinnon
X-Ray Structure Of A Voltage-Dependent K+ Channel
Nature V. 423 33 2003
[
close entry info
]
Hetero Components
(2, 13)
Info
All Hetero Components
1a: CADMIUM ION (CDa)
1b: CADMIUM ION (CDb)
1c: CADMIUM ION (CDc)
1d: CADMIUM ION (CDd)
1e: CADMIUM ION (CDe)
1f: CADMIUM ION (CDf)
1g: CADMIUM ION (CDg)
2a: POTASSIUM ION (Ka)
2b: POTASSIUM ION (Kb)
2c: POTASSIUM ION (Kc)
2d: POTASSIUM ION (Kd)
2e: POTASSIUM ION (Ke)
2f: POTASSIUM ION (Kf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CD
7
Ligand/Ion
CADMIUM ION
2
K
6
Ligand/Ion
POTASSIUM ION
[
close Hetero Component info
]
Sites
(11, 11)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
K C:2 , TYR C:199
BINDING SITE FOR RESIDUE K C 1
02
AC2
SOFTWARE
K C:1 , K C:3 , VAL C:197 , GLY C:198
BINDING SITE FOR RESIDUE K C 2
03
AC3
SOFTWARE
K C:2 , K C:4 , THR C:196 , VAL C:197
BINDING SITE FOR RESIDUE K C 3
04
AC4
SOFTWARE
K C:3 , THR C:196
BINDING SITE FOR RESIDUE K C 4
05
AC5
SOFTWARE
SER C:182 , ASP C:185
BINDING SITE FOR RESIDUE CD C 7
06
AC6
SOFTWARE
CYS C:46
BINDING SITE FOR RESIDUE CD C 8
07
AC7
SOFTWARE
PRO C:95 , ARG C:133
BINDING SITE FOR RESIDUE CD C 9
08
AC8
SOFTWARE
ARG A:62 , GLU A:82
BINDING SITE FOR RESIDUE CD A 216
09
AC9
SOFTWARE
ASP A:168
BINDING SITE FOR RESIDUE CD A 217
10
BC1
SOFTWARE
ASP A:152 , HIS A:190 , ASP B:178
BINDING SITE FOR RESIDUE CD B 220
11
BC2
SOFTWARE
GLU A:17
BINDING SITE FOR RESIDUE CD A 218
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (A:193-199)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
IGKC_MOUSE
84-90
1
A:193-199
[
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.
SCOP Domains
(5, 5)
Info
All SCOP Domains
1a: SCOP_d1orqb2 (B:119-219)
2a: SCOP_d1orqa2 (A:109-215)
3a: SCOP_d1orqb1 (B:1-118)
4a: SCOP_d1orqa1 (A:1-108)
5a: SCOP_d1orqc_ (C:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma
(608)
Mouse (Mus musculus) [TaxId: 10090]
(414)
1a
d1orqb2
B:119-219
Protein domain
:
Immunoglobulin light chain kappa constant domain, CL-kappa
(495)
Mouse (Mus musculus) [TaxId: 10090]
(345)
2a
d1orqa2
A:109-215
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
Immunoglobulin heavy chain variable domain, VH
(658)
Mouse (Mus musculus), cluster 7.1 [TaxId: 10090]
(38)
3a
d1orqb1
B:1-118
Protein domain
:
Immunoglobulin light chain kappa variable domain, VL-kappa
(616)
Mouse (Mus musculus), cluster 3.1 [TaxId: 10090]
(13)
4a
d1orqa1
A:1-108
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
Voltage-gated potassium channels
(62)
Superfamily
:
Voltage-gated potassium channels
(62)
Family
:
Voltage-gated potassium channels
(61)
Protein domain
:
Potassium channel KVAP
(3)
Aeropyrum pernix [TaxId: 56636]
(3)
5a
d1orqc_
C:
[
close SCOP info
]
CATH Domains
(2, 5)
Info
all CATH domains
1a: CATH_1orqC01 (C:23-240)
2a: CATH_1orqA02 (A:110-212)
2b: CATH_1orqB02 (B:119-217)
2c: CATH_1orqB01 (B:1-118)
2d: CATH_1orqA01 (A:1-109)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.70, no name defined]
(106)
House mouse (Mus musculus)
(24)
1a
1orqC01
C:23-240
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
House mouse (Mus musculus)
(616)
2a
1orqA02
A:110-212
2b
1orqB02
B:119-217
2c
1orqB01
B:1-118
2d
1orqA01
A:1-109
[
close CATH info
]
Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_C1_set_1orqA01 (A:120-207)
2a: PFAM_Ion_trans_2_1orqC01 (C:155-237)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Ig
(577)
Family
:
C1-set
(338)
Mus musculus (Mouse)
(118)
1a
C1-set-1orqA01
A:120-207
Clan
:
Ion_channel
(150)
Family
:
Ion_trans_2
(35)
Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)
(1)
2a
Ion_trans_2-1orqC01
C:155-237
[
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 A
Chain B
Chain C
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 (111 KB)
Header - Asym.Unit
Biol.Unit 1 (407 KB)
Header - Biol.Unit 1
Biol.Unit 2 (810 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
1ORQ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
