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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
2OVE
Asym. Unit
Info
Asym.Unit (32 KB)
Biol.Unit 1 (29 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 RECOMBINANT HUMAN COMPLEMENT PROTEIN C8GAMMA
Authors
:
B. Chiswell, L. L. Lovelace, C. Brannen, E. A. Ortlund, L. Lebioda, J. M. Sodetz
Date
:
13 Feb 07 (Deposition) - 22 May 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Lipocalin; Beta Barrel, Transport Protein, Ligand Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Chiswell, L. L. Lovelace, C. Brannen, E. A. Ortlund, L. Lebioda, J. M. Sodetz
Structural Features Of The Ligand Binding Site On Human Complement Protein C8Gamma: A Member Of The Lipocalin Family
Biochim. Biophys. Acta V. 1774 637 2007
(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
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_044319 (G98G, chain A, )
2: VAR_014669 (H104N, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_044319
D
118
G
CO8G_HUMAN
Polymorphism
7850844
A
G
98
G
2
UniProt
VAR_014669
H
124
N
CO8G_HUMAN
Polymorphism
17613
A
H
104
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: LIPOCALIN (A:21-34)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LIPOCALIN
PS00213
Lipocalin signature.
CO8G_HUMAN
41-54
1
A:21-34
[
close PROSITE info
]
Exons
(7, 7)
Info
All Exons
Exon 1.1b (A:11-26)
Exon 1.2 (A:27-72 (gaps))
Exon 1.3 (A:72-96)
Exon 1.4a (A:96-132)
Exon 1.6c (A:132-166)
Exon 1.7a (A:166-179)
Exon 1.7c (A:179-180)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1b
2: Boundary 1.1b/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4a
5: Boundary 1.4a/1.6c
6: Boundary 1.6c/1.7a
7: Boundary 1.7a/1.7c
8: Boundary 1.7c/-
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
ENST00000224181
1b
ENSE00001834506
chr9:
139839713-139839910
198
CO8G_HUMAN
1-46
46
1
A:11-26
16
1.2
ENST00000224181
2
ENSE00000734163
chr9:
139840086-139840222
137
CO8G_HUMAN
47-92
46
1
A:27-72 (gaps)
46
1.3
ENST00000224181
3
ENSE00001194952
chr9:
139840381-139840451
71
CO8G_HUMAN
92-116
25
1
A:72-96
25
1.4a
ENST00000224181
4a
ENSE00000734168
chr9:
139840537-139840644
108
CO8G_HUMAN
116-152
37
1
A:96-132
37
1.6c
ENST00000224181
6c
ENSE00000734170
chr9:
139840917-139841018
102
CO8G_HUMAN
152-186
35
1
A:132-166
35
1.7a
ENST00000224181
7a
ENSE00001407255
chr9:
139841103-139841141
39
CO8G_HUMAN
186-199
14
1
A:166-179
14
1.7c
ENST00000224181
7c
ENSE00001902507
chr9:
139841220-139841419
200
CO8G_HUMAN
199-202
4
1
A:179-180
2
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2ovea_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Lipocalins
(514)
Superfamily
:
Lipocalins
(514)
Family
:
Retinol binding protein-like
(261)
Protein domain
:
automated matches
(36)
Human (Homo sapiens) [TaxId: 9606]
(11)
1a
d2ovea_
A:
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_2oveA00 (A:11-180)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Lipocalin
(526)
Homologous Superfamily
:
[code=2.40.128.20, no name defined]
(352)
Human (Homo sapiens)
(91)
1a
2oveA00
A:11-180
[
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 (32 KB)
Header - Asym.Unit
Biol.Unit 1 (29 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
2OVE
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help