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.
2FY8
Asym. Unit
Info
Asym.Unit (288 KB)
Biol.Unit 1 (276 KB)
Biol.Unit 2 (277 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 MTHK RCK DOMAIN IN ITS LIGAND-FREE GATING-RING FORM
Authors
:
S. Ye, Y. Jiang
Date
:
07 Feb 06 (Deposition) - 05 Sep 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.79
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (2x)
Biol. Unit 2: E,F,G,H (2x)
Keywords
:
Transport, Ionic Channel, Alternative Initiation, Transmembrane, Ion Transport, Potassium, Potassium Transport, Membrane, Gating Ring, Closed Conformation, Partially Open Conformation, Transition State, Transport Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Ye, Y. Li, L. Chen, Y. Jiang
Crystal Structures Of A Ligand-Free Mthk Gating Ring: Insights Into The Ligand Gating Mechanism Of K(+) Channels.
Cell(Cambridge, Mass. ) V. 126 1161 2006
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
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
(2, 16)
Info
All PROSITE Patterns/Profiles
1: RCK_N (A:117-237,B:117-237,C:117-237,D:11...)
2: RCK_C (A:252-336,B:252-336,C:252-336,D:25...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RCK_N
PS51201
RCK N-terminal domain profile.
MTHK_METTH
117-237
8
A:117-237
B:117-237
C:117-237
D:117-237
E:117-237
F:117-237
G:117-237
H:117-237
2
RCK_C
PS51202
RCK C-terminal domain profile.
MTHK_METTH
252-336
8
A:252-336
B:252-336
C:252-336
D:252-336
E:252-336
F:252-336
G:252-336
H:252-336
[
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
(2, 16)
Info
All SCOP Domains
1a: SCOP_d2fy8a2 (A:245-336)
1b: SCOP_d2fy8g2 (G:245-336)
1c: SCOP_d2fy8h2 (H:245-336)
1d: SCOP_d2fy8b2 (B:245-336)
1e: SCOP_d2fy8c2 (C:245-336)
1f: SCOP_d2fy8d2 (D:245-336)
1g: SCOP_d2fy8e2 (E:245-336)
1h: SCOP_d2fy8f2 (F:245-336)
2a: SCOP_d2fy8a1 (A:115-244)
2b: SCOP_d2fy8g1 (G:115-244)
2c: SCOP_d2fy8h1 (H:115-244)
2d: SCOP_d2fy8b1 (B:115-244)
2e: SCOP_d2fy8c1 (C:115-244)
2f: SCOP_d2fy8d1 (D:115-244)
2g: SCOP_d2fy8e1 (E:115-244)
2h: SCOP_d2fy8f1 (F:115-244)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
TrkA C-terminal domain-like
(15)
Superfamily
:
TrkA C-terminal domain-like
(15)
Family
:
TrkA C-terminal domain-like
(9)
Protein domain
:
Potassium channel-related protein MthK, C-terminal domain
(5)
Methanothermobacter thermautotrophicus [TaxId: 145262]
(5)
1a
d2fy8a2
A:245-336
1b
d2fy8g2
G:245-336
1c
d2fy8h2
H:245-336
1d
d2fy8b2
B:245-336
1e
d2fy8c2
C:245-336
1f
d2fy8d2
D:245-336
1g
d2fy8e2
E:245-336
1h
d2fy8f2
F:245-336
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Potassium channel NAD-binding domain
(19)
Protein domain
:
Potassium channel-related protein MthK
(5)
Methanothermobacter thermautotrophicus [TaxId: 145262]
(5)
2a
d2fy8a1
A:115-244
2b
d2fy8g1
G:115-244
2c
d2fy8h1
H:115-244
2d
d2fy8b1
B:115-244
2e
d2fy8c1
C:115-244
2f
d2fy8d1
D:115-244
2g
d2fy8e1
E:115-244
2h
d2fy8f1
F:115-244
[
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 A
Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
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 (288 KB)
Header - Asym.Unit
Biol.Unit 1 (276 KB)
Header - Biol.Unit 1
Biol.Unit 2 (277 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
2FY8
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help