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.
4L73
Asym. Unit
Info
Asym.Unit (156 KB)
Biol.Unit 1 (148 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CA2+-BOUND MTHK RCK DOMAIN AT 2.5 ANGSTROM
Authors
:
F. J. Smith, B. S. Rothberg
Date
:
13 Jun 13 (Deposition) - 23 Oct 13 (Release) - 13 Nov 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Rossmann Fold, Regulatory Domain, Calcium Binding, Membrane- Associated, Metal Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. J. Smith, V. P. Pau, G. Cingolani, B. S. Rothberg
Structural Basis Of Allosteric Interactions Among Ca(2+)-Binding Sites In A K(+) Channel Rck Domain.
Nat Commun V. 4 2621 2013
[
close entry info
]
Hetero Components
(3, 14)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
2a: CHLORIDE ION (CLa)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
3e: SODIUM ION (NAe)
3f: SODIUM ION (NAf)
3g: SODIUM ION (NAg)
3h: SODIUM ION (NAh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
5
Ligand/Ion
CALCIUM ION
2
CL
1
Ligand/Ion
CHLORIDE ION
3
NA
8
Ligand/Ion
SODIUM ION
[
close Hetero Component info
]
Sites
(14, 14)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:184 , GLU A:210 , GLU A:212 , HOH A:505 , HOH A:522 , HOH A:523
BINDING SITE FOR RESIDUE CA A 401
02
AC2
SOFTWARE
ARG A:241 , ASP A:245 , GLU A:248 , HOH A:504 , GLU B:266
BINDING SITE FOR RESIDUE CA A 402
03
AC3
SOFTWARE
GLY A:290 , GLU A:326 , ASP B:305 , HOH B:507 , HOH B:511
BINDING SITE FOR RESIDUE CA A 403
04
AC4
SOFTWARE
ASP A:287 , HOH A:509 , ASP B:282 , ARG B:308 , HOH B:502
BINDING SITE FOR RESIDUE NA A 404
05
AC5
SOFTWARE
ASP A:287 , HOH A:511 , HOH A:513 , ASP B:282 , HOH B:506
BINDING SITE FOR RESIDUE NA A 405
06
AC6
SOFTWARE
SER A:137 , GLY A:156 , HOH A:521 , HOH A:530
BINDING SITE FOR RESIDUE NA A 406
07
AC7
SOFTWARE
ARG A:176 , ASP A:202 , HOH A:542
BINDING SITE FOR RESIDUE NA A 407
08
AC8
SOFTWARE
ASP A:284 , ASP A:287 , HOH A:537 , ASP B:287 , NA B:406
BINDING SITE FOR RESIDUE NA A 408
09
AC9
SOFTWARE
ASP B:184 , GLU B:210 , GLU B:212 , HOH B:508 , HOH B:510 , HOH B:530
BINDING SITE FOR RESIDUE CA B 401
10
BC1
SOFTWARE
ASP A:305 , HOH A:506 , GLY B:290 , GLU B:326 , HOH B:501
BINDING SITE FOR RESIDUE CA B 402
11
BC2
SOFTWARE
HIS B:161
BINDING SITE FOR RESIDUE CL B 403
12
BC3
SOFTWARE
SER B:137 , GLY B:156 , HOH B:503 , HOH B:517 , HOH B:533
BINDING SITE FOR RESIDUE NA B 404
13
BC4
SOFTWARE
ARG B:116 , ARG B:176 , ASP B:202 , HOH B:513 , HOH B:522
BINDING SITE FOR RESIDUE NA B 405
14
BC5
SOFTWARE
NA A:408 , HOH A:511 , HOH A:537 , ASP B:284 , ASP B:287 , HOH B:506
BINDING SITE FOR RESIDUE NA B 406
[
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
(0, 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.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d4l73a2 (A:245-338)
1b: SCOP_d4l73b2 (B:245-336)
2a: SCOP_d4l73a1 (A:115-244)
2b: SCOP_d4l73b1 (B: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
:
automated matches
(6)
Protein domain
:
automated matches
(6)
Methanothermobacter thermautotrophicus [TaxId: 187420]
(6)
1a
d4l73a2
A:245-338
1b
d4l73b2
B: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
:
automated matches
(6)
Methanothermobacter thermautotrophicus [TaxId: 187420]
(6)
2a
d4l73a1
A:115-244
2b
d4l73b1
B: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
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 (156 KB)
Header - Asym.Unit
Biol.Unit 1 (148 KB)
Header - Biol.Unit 1
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
4L73
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help