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.
2CQR
Asym. Unit
Info
Asym.Unit (377 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
Models
(20 )
Title
:
SOLUTION STRUCTURE OF RSGI RUH-043, A MYB DNA-BINDING DOMAIN IN HUMAN CDNA
Authors
:
Y. Doi-Katayama, H. Hirota, F. Hayashi, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
20 May 05 (Deposition) - 20 Nov 05 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
Membrane Protein, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Doi-Katayama, H. Hirota, F. Hayashi, S. Yokoyama
Solution Structure Of Rsgi Ruh-043, A Myb Dna-Binding Domain In Human Cdna
To Be Published
(for further references see the
PDB file header
)
[
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 in "Model" view)
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: SANT (-|A:16-67)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SANT
PS51293
SANT domain profile.
DNJC1_HUMAN
325-379
492-547
1
-
A:16-67
[
close PROSITE info
]
Exons
(2, 2)
Info
All Exons
Exon 1.12b (A:1-56 (gaps))
Exon 1.13 (A:57-73)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.11/1.12b
2: Boundary 1.12b/1.13
3: Boundary 1.13/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1b
ENST00000376980
1b
ENSE00001940957
chr10:
22292654-22292142
513
DNJC1_HUMAN
1-74
74
0
-
-
1.2
ENST00000376980
2
ENSE00001092010
chr10:
22218070-22217969
102
DNJC1_HUMAN
75-108
34
0
-
-
1.3
ENST00000376980
3
ENSE00001092005
chr10:
22217481-22217435
47
DNJC1_HUMAN
109-124
16
0
-
-
1.4a
ENST00000376980
4a
ENSE00001092006
chr10:
22209892-22209727
166
DNJC1_HUMAN
124-179
56
0
-
-
1.5c
ENST00000376980
5c
ENSE00001092011
chr10:
22208858-22208761
98
DNJC1_HUMAN
180-212
33
0
-
-
1.6
ENST00000376980
6
ENSE00001092009
chr10:
22207801-22207708
94
DNJC1_HUMAN
212-243
32
0
-
-
1.7
ENST00000376980
7
ENSE00000985308
chr10:
22193541-22193451
91
DNJC1_HUMAN
244-274
31
0
-
-
1.8
ENST00000376980
8
ENSE00000985309
chr10:
22171368-22171211
158
DNJC1_HUMAN
274-326
53
0
-
-
1.10
ENST00000376980
10
ENSE00000985310
chr10:
22095028-22094909
120
DNJC1_HUMAN
327-366
40
0
-
-
1.11
ENST00000376980
11
ENSE00000985311
chr10:
22055238-22055190
49
DNJC1_HUMAN
367-383
17
0
-
-
1.12b
ENST00000376980
12b
ENSE00000985312
chr10:
22048547-22048099
449
DNJC1_HUMAN
383-532
150
1
A:1-56 (gaps)
105
1.13
ENST00000376980
13
ENSE00001472326
chr10:
22045684-22045466
219
DNJC1_HUMAN
533-554
22
1
A:57-73
17
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2cqra1 (A:7-66)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
DNA/RNA-binding 3-helical bundle
(1299)
Superfamily
:
Homeodomain-like
(373)
Family
:
Myb/SANT domain
(34)
Protein domain
:
DnaJ homolog subfamily C member 1
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2cqra1
A:7-66
[
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
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 (377 KB)
Header - Asym.Unit
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
2CQR
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help