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.
2DJV
Asym. Unit
Info
Asym.Unit (398 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 STRUCTURES OF THE WHEP-TRS DOMAIN OF HUMAN METHIONYL-TRNA SYNTHETASE
Authors
:
M. Sato, A. Sasagawa, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
05 Apr 06 (Deposition) - 05 Oct 06 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
Ec 6. 1. 1. 10, Whep-Trs Domain, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Protein Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Sato, A. Sasagawa, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solution Structures Of The Whep-Trs Domain Of Human Methionyl-Trna Synthetase
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
(2, 2)
Info
All PROSITE Patterns/Profiles
1: WHEP_TRS_2 (A:14-70)
2: WHEP_TRS_1 (A:25-53)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
WHEP_TRS_2
PS51185
WHEP-TRS domain profile.
SYMC_HUMAN
841-897
1
A:14-70
2
WHEP_TRS_1
PS00762
WHEP-TRS domain signature.
SYMC_HUMAN
852-880
1
A:25-53
[
close PROSITE info
]
Exons
(3, 3)
Info
All Exons
Exon 1.19 (A:1-2)
Exon 1.20 (A:3-25 (gaps))
Exon 1.21 (A:26-73)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.18/1.19
2: Boundary 1.19/1.20
3: Boundary 1.20/1.21
4: Boundary 1.21/-
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
ENST00000262027
1a
ENSE00001341718
chr12:
57881851-57881982
132
SYMC_HUMAN
1-37
37
0
-
-
1.2
ENST00000262027
2
ENSE00001274042
chr12:
57882802-57882892
91
SYMC_HUMAN
37-67
31
0
-
-
1.3
ENST00000262027
3
ENSE00001273905
chr12:
57883050-57883128
79
SYMC_HUMAN
67-93
27
0
-
-
1.4
ENST00000262027
4
ENSE00001274065
chr12:
57883207-57883341
135
SYMC_HUMAN
94-138
45
0
-
-
1.5
ENST00000262027
5
ENSE00001273978
chr12:
57883679-57883754
76
SYMC_HUMAN
139-164
26
0
-
-
1.6
ENST00000262027
6
ENSE00001273945
chr12:
57883990-57884162
173
SYMC_HUMAN
164-221
58
0
-
-
1.7b
ENST00000262027
7b
ENSE00001273888
chr12:
57884321-57884427
107
SYMC_HUMAN
222-257
36
0
-
-
1.8
ENST00000262027
8
ENSE00001108429
chr12:
57891940-57892056
117
SYMC_HUMAN
257-296
40
0
-
-
1.9
ENST00000262027
9
ENSE00001024050
chr12:
57892203-57892406
204
SYMC_HUMAN
296-364
69
0
-
-
1.10
ENST00000262027
10
ENSE00001024092
chr12:
57894104-57894305
202
SYMC_HUMAN
364-431
68
0
-
-
1.11
ENST00000262027
11
ENSE00001024045
chr12:
57898008-57898082
75
SYMC_HUMAN
432-456
25
0
-
-
1.12
ENST00000262027
12
ENSE00001273848
chr12:
57905481-57905651
171
SYMC_HUMAN
457-513
57
0
-
-
1.13a
ENST00000262027
13a
ENSE00001024125
chr12:
57905791-57905886
96
SYMC_HUMAN
514-545
32
0
-
-
1.14
ENST00000262027
14
ENSE00001024043
chr12:
57906019-57906136
118
SYMC_HUMAN
546-585
40
0
-
-
1.15a
ENST00000262027
15a
ENSE00001273818
chr12:
57906534-57906747
214
SYMC_HUMAN
585-656
72
0
-
-
1.16
ENST00000262027
16
ENSE00001273812
chr12:
57908503-57908634
132
SYMC_HUMAN
656-700
45
0
-
-
1.17
ENST00000262027
17
ENSE00001139685
chr12:
57908737-57908841
105
SYMC_HUMAN
700-735
36
0
-
-
1.18
ENST00000262027
18
ENSE00001139676
chr12:
57908933-57909119
187
SYMC_HUMAN
735-797
63
0
-
-
1.19
ENST00000262027
19
ENSE00001139670
chr12:
57909703-57909774
72
SYMC_HUMAN
798-821
24
1
A:1-2
2
1.20
ENST00000262027
20
ENSE00001273921
chr12:
57910028-57910120
93
SYMC_HUMAN
822-852
31
1
A:3-25 (gaps)
31
1.21
ENST00000262027
21
ENSE00001274018
chr12:
57910218-57910433
216
SYMC_HUMAN
853-900
48
1
A:26-73
48
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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 (398 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
2DJV
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help