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.
2DNH
Asym. Unit
Info
Asym.Unit (505 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 RNA BINDING DOMAIN IN BRUNO-LIKE 5 RNA BINDING PROTEIN
Authors
:
K. Tsuda, Y. Muto, M. Inoue, T. Kigawa, T. Terada, M. Shirouzu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
26 Apr 06 (Deposition) - 26 Oct 06 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
Rrm Domain, Rbd, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Rna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Tsuda, Y. Muto, M. Inoue, T. Kigawa, T. Terada, M. Shirouzu, S. Yokoyama
Solution Structure Of Rna Binding Domain In Bruno-Like 5 Rna Binding Protein
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, 2)
Info
All PROSITE Patterns/Profiles
1: RRM (A:126-126|A:134-214|-)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RRM
PS50102
Eukaryotic RNA Recognition Motif (RRM) profile.
CELF5_HUMAN
45-126
134-214
400-478
2
A:126-126
A:134-214
-
[
close PROSITE info
]
Exons
(7, 7)
Info
All Exons
Exon 1.1a (A:119-123)
Exon 1.3 (A:124-132)
Exon 1.4 (A:132-175)
Exon 1.5 (A:175-201)
Exon 1.6 (A:202-217)
Exon 1.7 (A:218-223 (gaps))
Exon 1.8b (A:223-223)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4
5: Boundary 1.4/1.5
6: Boundary 1.5/1.6
7: Boundary 1.6/1.7
8: Boundary 1.7/1.8b
9: Boundary 1.8b/1.9
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
1.1a
ENST00000292672
1a
ENSE00000859555
chr19:
3224701-3224996
296
CELF5_HUMAN
1-87
87
1
A:119-123
5
1.2
ENST00000292672
2
ENSE00000859558
chr19:
3250983-3251065
83
CELF5_HUMAN
87-114
28
0
-
-
1.3
ENST00000292672
3
ENSE00000859559
chr19:
3273870-3273921
52
CELF5_HUMAN
115-132
18
1
A:124-132
9
1.4
ENST00000292672
4
ENSE00000859561
chr19:
3275854-3275982
129
CELF5_HUMAN
132-175
44
1
A:132-175
44
1.5
ENST00000292672
5
ENSE00001741997
chr19:
3278029-3278108
80
CELF5_HUMAN
175-201
27
1
A:175-201
27
1.6
ENST00000292672
6
ENSE00001210748
chr19:
3281197-3281343
147
CELF5_HUMAN
202-250
49
1
A:202-217
16
1.7
ENST00000292672
7
ENSE00001056275
chr19:
3282124-3282265
142
CELF5_HUMAN
251-298
48
1
A:218-223 (gaps)
37
1.8b
ENST00000292672
8b
ENSE00001056278
chr19:
3282350-3282496
147
CELF5_HUMAN
298-347
50
1
A:223-223
1
1.9
ENST00000292672
9
ENSE00001711305
chr19:
3284900-3284962
63
CELF5_HUMAN
347-368
22
0
-
-
1.10
ENST00000292672
10
ENSE00001783118
chr19:
3285940-3286023
84
CELF5_HUMAN
368-396
29
0
-
-
1.11a
ENST00000292672
11a
ENSE00001056280
chr19:
3290229-3290372
144
CELF5_HUMAN
396-444
49
0
-
-
1.12
ENST00000292672
12
ENSE00001056276
chr19:
3293317-3293484
168
CELF5_HUMAN
444-485
42
0
-
-
1.13
ENST00000292672
13
ENSE00001357967
chr19:
3296756-3297071
316
CELF5_HUMAN
-
0
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2dnha_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ferredoxin-like
(1795)
Superfamily
:
RNA-binding domain, RBD
(289)
Family
:
automated matches
(67)
Protein domain
:
automated matches
(67)
Human (Homo sapiens) [TaxId: 9606]
(56)
1a
d2dnha_
A:
[
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 (505 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
2DNH
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help