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.
1KL9
Asym. Unit
Info
Asym.Unit (34 KB)
Biol.Unit 1 (30 KB)
Biol.Unit 2 (57 KB)
Biol.Unit 3 (58 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF THE N-TERMINAL SEGMENT OF HUMAN EUKARYOTIC INITIATION FACTOR 2ALPHA
Authors
:
M. C. Nonato, J. Widom, J. Clardy
Date
:
11 Dec 01 (Deposition) - 11 Mar 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Biol. Unit 2: A (2x)
Biol. Unit 3: A (2x)
Keywords
:
Ob Fold, Helical Domain, Translation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. C. Nonato, J. Widom, J. Clardy
Crystal Structure Of The N-Terminal Segment Of Human Eukaryotic Translation Initiation Factor 2Alpha
J. Biol. Chem. V. 277 17057 2002
[
close entry info
]
Hetero Components
(2, 7)
Info
All Hetero Components
1a: SELENOMETHIONINE (MSEa)
1b: SELENOMETHIONINE (MSEb)
1c: SELENOMETHIONINE (MSEc)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
2d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MSE
3
Mod. Amino Acid
SELENOMETHIONINE
2
ZN
4
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLU A:42 , HIS A:154 , ASP A:158 , HOH A:592
BINDING SITE FOR RESIDUE ZN A 501
2
AC2
SOFTWARE
HIS A:10 , HOH A:587 , HOH A:596
BINDING SITE FOR RESIDUE ZN A 502
3
AC3
SOFTWARE
HIS A:10 , LYS A:11 , PHE A:12 , LYS A:77 , LYS A:142
BINDING SITE FOR RESIDUE ZN A 503
4
AC4
SOFTWARE
HIS A:113 , GLU A:119 , HOH A:584
BINDING SITE FOR RESIDUE ZN A 504
[
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
(1, 1)
Info
All PROSITE Patterns/Profiles
1: S1 (A:16-87)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
S1
PS50126
S1 domain profile.
IF2A_HUMAN
17-88
1
A:16-87
[
close PROSITE info
]
Exons
(4, 4)
Info
All Exons
Exon 1.2b (A:3-80 (gaps))
Exon 1.3b (A:80-106)
Exon 1.4 (A:107-157)
Exon 1.5 (A:157-182)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1a/1.2b
2: Boundary 1.2b/1.3b
3: Boundary 1.3b/1.4
4: Boundary 1.4/1.5
5: Boundary 1.5/1.6
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
ENST00000256383
1a
ENSE00001931166
chr14:
67826745-67827173
429
IF2A_HUMAN
-
0
0
-
-
1.2b
ENST00000256383
2b
ENSE00002024286
chr14:
67831484-67831725
242
IF2A_HUMAN
1-81
81
1
A:3-80 (gaps)
78
1.3b
ENST00000256383
3b
ENSE00000911628
chr14:
67841185-67841264
80
IF2A_HUMAN
81-107
27
1
A:80-106
27
1.4
ENST00000256383
4
ENSE00000911630
chr14:
67843156-67843307
152
IF2A_HUMAN
108-158
51
1
A:107-157
51
1.5
ENST00000256383
5
ENSE00000911632
chr14:
67847376-67847482
107
IF2A_HUMAN
158-194
37
1
A:157-182
26
1.6
ENST00000256383
6
ENSE00000911634
chr14:
67848310-67848407
98
IF2A_HUMAN
194-226
33
0
-
-
1.7
ENST00000256383
7
ENSE00000911635
chr14:
67849164-67849307
144
IF2A_HUMAN
227-274
48
0
-
-
1.8b
ENST00000256383
8b
ENSE00001168441
chr14:
67850032-67853233
3202
IF2A_HUMAN
275-315
41
0
-
-
[
close EXON info
]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1kl9a1 (A:89-182)
2a: SCOP_d1kl9a2 (A:3-88)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
SAM domain-like
(639)
Superfamily
:
eIF2alpha middle domain-like
(7)
Family
:
eIF2alpha middle domain-like
(5)
Protein domain
:
Eukaryotic initiation factor 2alpha, eIF2alpha, domain 2
(5)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1kl9a1
A:89-182
Class
:
All beta proteins
(24004)
Fold
:
OB-fold
(1179)
Superfamily
:
Nucleic acid-binding proteins
(590)
Family
:
Cold shock DNA-binding domain-like
(310)
Protein domain
:
Eukaryotic initiation factor 2alpha, eIF2alpha, N-terminal domain
(5)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d1kl9a2
A:3-88
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1kl9A02 (A:90-181)
2a: CATH_1kl9A01 (A:3-89)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
DNA polymerase; domain 1
(617)
Homologous Superfamily
:
Translation initiation factor 2; subunit 1; domain 2
(5)
Human (Homo sapiens)
(2)
1a
1kl9A02
A:90-181
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
Nucleic acid-binding proteins
(483)
Human (Homo sapiens)
(27)
2a
1kl9A01
A:3-89
[
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 (34 KB)
Header - Asym.Unit
Biol.Unit 1 (30 KB)
Header - Biol.Unit 1
Biol.Unit 2 (57 KB)
Header - Biol.Unit 2
Biol.Unit 3 (58 KB)
Header - Biol.Unit 3
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
1KL9
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
