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.
3IOZ
Asym. Unit
Info
Asym.Unit (27 KB)
Biol.Unit 1 (23 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
SIVMAC239 NEF IN COMPLEX WITH A TCR ZETA POLYPEPTIDE DP1 (L51-D93)
Authors
:
W. M. Kim, A. B. Sigalov, L. J. Stern
Date
:
15 Aug 09 (Deposition) - 02 Feb 10 (Release) - 28 Mar 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Protein-Protein Complex, Cell Membrane, Lipoprotein, Membrane, Myristate, Viral Immunoevasion, Virulence, Disulfide Bond, Host- Virus Interaction, Phosphoprotein, Receptor, Transmembrane, Viral Protein-Antiviral Protein Complex, Viral Protein-Signaling Protein Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. M. Kim, A. B. Sigalov, L. J. Stern
Pseudo-Merohedral Twinning And Noncrystallographic Symmetry In Orthorhombic Crystals Of Sivmac239 Nef Core Domain Bound To Different-Length Tcrzeta Fragments.
Acta Crystallogr. , Sect. D V. 66 163 2010
[
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)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(2, 2)
Info
All Exons
Exon 1.3c (B:63-73)
Exon 1.4 (B:74-78)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2a/1.3c
2: Boundary 1.3c/1.4
3: Boundary 1.4/1.5a
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
ENST00000362089
1b
ENSE00001897306
chr1:
167487775-167487645
131
CD3Z_HUMAN
1-20
20
0
-
-
1.2a
ENST00000362089
2a
ENSE00001164461
chr1:
167410004-167409901
104
CD3Z_HUMAN
20-54
35
0
-
-
1.3c
ENST00000362089
3c
ENSE00000958523
chr1:
167408637-167408581
57
CD3Z_HUMAN
55-73
19
1
B:63-73
11
1.4
ENST00000362089
4
ENSE00000958524
chr1:
167407887-167407807
81
CD3Z_HUMAN
74-100
27
1
B:74-78
5
1.5a
ENST00000362089
5a
ENSE00001067430
chr1:
167404671-167404636
36
CD3Z_HUMAN
101-112
12
0
-
-
1.5d
ENST00000362089
5d
ENSE00000958526
chr1:
167403313-167403257
57
CD3Z_HUMAN
113-131
19
0
-
-
1.6
ENST00000362089
6
ENSE00000958527
chr1:
167402296-167402261
36
CD3Z_HUMAN
132-143
12
0
-
-
1.7d
ENST00000362089
7d
ENSE00001924110
chr1:
167400983-167399877
1107
CD3Z_HUMAN
144-164
21
0
-
-
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3iozA00 (A:107-234)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Nef Regulatory Factor
(6)
Homologous Superfamily
:
Nef Regulatory Factor
(6)
Simian immunodeficiency virus. Organism_taxid: 388909.
(1)
1a
3iozA00
A:107-234
[
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
Chain B
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 (27 KB)
Header - Asym.Unit
Biol.Unit 1 (23 KB)
Header - Biol.Unit 1
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
3IOZ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help