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.
3BIS
Asym. Unit
Info
Asym.Unit (76 KB)
Biol.Unit 1 (37 KB)
Biol.Unit 2 (36 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 PD-L1
Authors
:
D. Y. Lin, Y. Tanaka, M. Iwasaki, A. G. Gittis, H. P. Su, B. Mikami, T. Okaz T. Honjo, N. Minato, D. N. Garboczi
Date
:
30 Nov 07 (Deposition) - 26 Feb 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.64
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Co-Stimulation, Immunoglobulin-Like Beta-Sandwich, T Cell, B Cell, Programmed Death, Immune System, Transmembrane, Inhibitory Receptor, Glycoprotein, Immunoglobulin Domain
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Y. Lin, Y. Tanaka, M. Iwasaki, A. G. Gittis, H. P. Su, B. Mikami, T. Okazaki, T. Honjo, N. Minato, D. N. Garboczi
The Pd-1/Pd-L1 Complex Resembles The Antigen-Binding Fv Domains Of Antibodies And T Cell Receptors.
Proc. Natl. Acad. Sci. Usa V. 105 3011 2008
[
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
(4, 7)
Info
All Exons
Exon 1.2a (- | B:18-18)
Exon 1.3a (A:19-132 | B:18-132)
Exon 1.4b (A:132-228 | B:132-228)
Exon 1.5b (A:228-230 | B:228-229)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1a/1.2a
2: Boundary 1.2a/1.3a
3: Boundary 1.3a/1.4b
4: Boundary 1.4b/1.5b
5: Boundary 1.5b/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
ENST00000381577
1a
ENSE00001892659
chr9:
5450525-5450596
72
PD1L1_HUMAN
-
0
0
-
-
1.2a
ENST00000381577
2a
ENSE00000813155
chr9:
5456100-5456165
66
PD1L1_HUMAN
1-18
18
1
-
B:18-18
-
1
1.3a
ENST00000381577
3a
ENSE00000813156
chr9:
5457079-5457420
342
PD1L1_HUMAN
18-132
115
2
A:19-132
B:18-132
114
115
1.4b
ENST00000381577
4b
ENSE00000813157
chr9:
5462834-5463121
288
PD1L1_HUMAN
132-228
97
2
A:132-228
B:132-228
97
97
1.5b
ENST00000381577
5b
ENSE00000813158
chr9:
5465499-5465606
108
PD1L1_HUMAN
228-264
37
2
A:228-230
B:228-229
3
2
1.6
ENST00000381577
6
ENSE00001410545
chr9:
5466770-5466829
60
PD1L1_HUMAN
264-284
21
0
-
-
1.7c
ENST00000381577
7c
ENSE00001889081
chr9:
5467840-5470547
2708
PD1L1_HUMAN
284-290
7
0
-
-
[
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
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 (76 KB)
Header - Asym.Unit
Biol.Unit 1 (37 KB)
Header - Biol.Unit 1
Biol.Unit 2 (36 KB)
Header - Biol.Unit 2
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
3BIS
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help