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.
3RQF
Asym. Unit
Info
Asym.Unit (283 KB)
Biol.Unit 1 (277 KB)
Biol.Unit 2 (276 KB)
Biol.Unit 3 (276 KB)
Biol.Unit 4 (277 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CEREBRAL CAVERNOUS MALFORMATION 3 (CCM3) IN COMPLEX WITH PAXILLIN LD2
Authors
:
X. Li, R. Zhang, T. J. Boggon
Date
:
28 Apr 11 (Deposition) - 01 Jun 11 (Release) - 24 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (1x)
Biol. Unit 2: A,B,C,D,E (1x)
Biol. Unit 3: A,B,C,D,E (1x)
Biol. Unit 4: A,B,C,D,E (1x)
Keywords
:
Protein-Peptide Complex, Protein Binding, Fat Domain, Dimerization, Cerebral Cavernous Malformation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
X. Li, W. Ji, R. Zhang, E. Folta-Stogniew, W. Min, T. J. Boggon
Molecular Recognition Of Leucine-Aspartate Repeat (Ld) Motifs By The Focal Adhesion Targeting Homology Domain Of Cerebral Cavernous Malformation 3 (Ccm3).
J. Biol. Chem. V. 286 26138 2011
[
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
(1, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_023578 (D102A, chain A/B/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_023578
D
102
A
PDC10_HUMAN
Polymorphism
1129087
A/B/C/D
D
102
A
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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
(1, 1)
Info
All Exons
Exon 1.6 (E:143-153)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.5b/1.6
2: Boundary 1.6/1.7
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
1.1
ENST00000228307
1
ENSE00002150335
chr12:
120703563-120703420
144
PAXI_HUMAN
1-5
5
0
-
-
1.4b
ENST00000228307
4b
ENSE00001689444
chr12:
120662180-120661954
227
PAXI_HUMAN
5-80
76
0
-
-
1.5b
ENST00000228307
5b
ENSE00001679472
chr12:
120661636-120661521
116
PAXI_HUMAN
81-119
39
0
-
-
1.6
ENST00000228307
6
ENSE00001768793
chr12:
120660802-120660666
137
PAXI_HUMAN
119-165
47
1
E:143-153
11
1.7
ENST00000228307
7
ENSE00001668346
chr12:
120660553-120660352
202
PAXI_HUMAN
165-232
68
0
-
-
1.8
ENST00000228307
8
ENSE00001756096
chr12:
120659561-120659426
136
PAXI_HUMAN
232-277
46
0
-
-
1.12
ENST00000228307
12
ENSE00001729387
chr12:
120653464-120653363
102
PAXI_HUMAN
278-311
34
0
-
-
1.13b
ENST00000228307
13b
ENSE00001653040
chr12:
120653076-120652906
171
PAXI_HUMAN
312-368
57
0
-
-
1.14
ENST00000228307
14
ENSE00001670431
chr12:
120652801-120652628
174
PAXI_HUMAN
369-426
58
0
-
-
1.15
ENST00000228307
15
ENSE00001798560
chr12:
120652020-120651939
82
PAXI_HUMAN
427-454
28
0
-
-
1.16
ENST00000228307
16
ENSE00001667198
chr12:
120651793-120651645
149
PAXI_HUMAN
454-503
50
0
-
-
1.17c
ENST00000228307
17c
ENSE00001473236
chr12:
120650383-120648251
2133
PAXI_HUMAN
504-591
88
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
(1, 4)
Info
all PFAM domains
1a: PFAM_DUF1241_3rqfD01 (D:10-162)
1b: PFAM_DUF1241_3rqfD02 (D:10-162)
1c: PFAM_DUF1241_3rqfD03 (D:10-162)
1d: PFAM_DUF1241_3rqfD04 (D:10-162)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: DUF1241]
(5)
Family
:
DUF1241
(5)
Homo sapiens (Human)
(5)
1a
DUF1241-3rqfD01
D:10-162
1b
DUF1241-3rqfD02
D:10-162
1c
DUF1241-3rqfD03
D:10-162
1d
DUF1241-3rqfD04
D:10-162
[
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
Chain C
Chain D
Chain E
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 (283 KB)
Header - Asym.Unit
Biol.Unit 1 (277 KB)
Header - Biol.Unit 1
Biol.Unit 2 (276 KB)
Header - Biol.Unit 2
Biol.Unit 3 (276 KB)
Header - Biol.Unit 3
Biol.Unit 4 (277 KB)
Header - Biol.Unit 4
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
3RQF
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
