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.
1X5P
Asym. Unit
Info
Asym.Unit (484 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 RRM DOMAIN IN PARP14
Authors
:
W. Dang, Y. Muto, M. Inoue, T. Kigawa, M. Shirouzu, T. Terada, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
16 May 05 (Deposition) - 16 Nov 05 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
Nmr, Structure Genomics, Rrm Domain, Parp14, 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
:
W. Dang, Y. Muto, M. Inoue, T. Kigawa, M. Shirouzu, T. Terada, S. Yokoyama
Solution Structure Of Rrm Domain In Parp14
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: RRM (A:16-86)
;
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.
NELFE_HUMAN
262-332
1
A:16-86
[
close PROSITE info
]
Exons
(4, 4)
Info
All Exons
Exon 1.22f (A:1-2 (gaps))
Exon 1.23b (A:2-50)
Exon 1.24c (A:50-68)
Exon 1.24j (A:69-97)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.22b/1.22f
2: Boundary 1.22f/1.23b
3: Boundary 1.23b/1.24c
4: Boundary 1.24c/1.24j
5: Boundary 1.24j/1.25d
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
1.18a
ENST00000383343
18a
ENSE00001809819
HSCHR6_MHC_QBL:31917261-31917061
201
NELFE_HUMAN
-
0
0
-
-
1.18q
ENST00000383343
18q
ENSE00002158378
HSCHR6_MHC_QBL:31916623-31916541
83
NELFE_HUMAN
1-25
25
0
-
-
1.20a
ENST00000383343
20a
ENSE00001779968
HSCHR6_MHC_QBL:31915179-31915110
70
NELFE_HUMAN
26-49
24
0
-
-
1.20c
ENST00000383343
20c
ENSE00001731569
HSCHR6_MHC_QBL:31915007-31914862
146
NELFE_HUMAN
49-97
49
0
-
-
1.21ad
ENST00000383343
21ad
ENSE00001639990
HSCHR6_MHC_QBL:31913467-31913393
75
NELFE_HUMAN
98-122
25
0
-
-
1.22b
ENST00000383343
22b
ENSE00001607333
HSCHR6_MHC_QBL:31913270-31913233
38
NELFE_HUMAN
123-135
13
0
-
-
1.22f
ENST00000383343
22f
ENSE00001650692
HSCHR6_MHC_QBL:31913066-31912729
338
NELFE_HUMAN
135-248
114
1
A:1-2 (gaps)
5
1.23b
ENST00000383343
23b
ENSE00001661527
HSCHR6_MHC_QBL:31912616-31912472
145
NELFE_HUMAN
248-296
49
1
A:2-50
49
1.24c
ENST00000383343
24c
ENSE00001703897
HSCHR6_MHC_QBL:31912308-31912254
55
NELFE_HUMAN
296-314
19
1
A:50-68
19
1.24j
ENST00000383343
24j
ENSE00001793271
HSCHR6_MHC_QBL:31912005-31911903
103
NELFE_HUMAN
315-349
35
1
A:69-97
29
1.25d
ENST00000383343
25d
ENSE00001916146
HSCHR6_MHC_QBL:31910572-31910261
312
NELFE_HUMAN
349-380
32
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1x5pa1 (A:8-91)
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
:
Canonical RBD
(214)
Protein domain
:
Negative elongation factor E, NELF-E
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d1x5pa1
A:8-91
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_RRM_1_1x5pA01 (A:21-80)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
RRM
(206)
Family
:
RRM_1
(131)
Homo sapiens (Human)
(94)
1a
RRM_1-1x5pA01
A:21-80
[
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 (484 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
1X5P
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help