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.
3EU7
Asym. Unit
Info
Asym.Unit (59 KB)
Biol.Unit 1 (54 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 A PALB2 / BRCA2 COMPLEX
Authors
:
A. W. Oliver, L. H. Pearl
Date
:
09 Oct 08 (Deposition) - 28 Jul 09 (Release) - 12 Nov 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,X
Biol. Unit 1: A,X (1x)
Keywords
:
Wd40 Domain, Beta Propeller, Protein-Peptide Complex, Fanconi Anemia, Nucleus, Phosphoprotein, Wd Repeat, Disease Mutation, Dna Damage, Dna Repair, Transcription-Antitumor Protein Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. W. Oliver, S. Swift, C. J. Lord, A. Ashworth, L. H. Pearl
Structural Basis For Recruitment Of Brca2 By Palb2
Embo Rep. V. 10 990 2009
[
close entry info
]
Hetero Components
(2, 3)
Info
All Hetero Components
1a: 3-SULFINOALANINE (CSDa)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CSD
1
Mod. Amino Acid
3-SULFINOALANINE
2
GOL
2
Ligand/Ion
GLYCEROL
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ALA A:874 , PRO A:885 , CYS A:886 , SER A:1165 , THR A:1167 , ASP A:1168 , HIS A:1170
BINDING SITE FOR RESIDUE GOL A 1
2
AC2
SOFTWARE
ARG A:942 , GLU A:943 , SER A:963 , ASN A:1003 , HOH A:1217
BINDING SITE FOR RESIDUE GOL A 2
[
close Site info
]
SAPs(SNPs)/Variants
(17, 17)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_028167 (G25R, chain X, )
02: VAR_028168 (W31C, chain X, )
03: VAR_028169 (W31R, chain X, )
04: VAR_005085 (F32L, chain X, )
05: VAR_054150 (P864S, chain A, )
06: VAR_066373 (V917A, chain A, )
07: VAR_066374 (V932M, chain A, )
08: VAR_066375 (L939W, chain A, )
09: VAR_066376 (I966V, chain A, )
10: VAR_066377 (G998E, chain A, )
11: VAR_066378 (A1025T, chain A, )
12: VAR_066379 (G1043A, chain A, )
13: VAR_066380 (S1075G, chain A, )
14: VAR_066381 (V1105A, chain A, )
15: VAR_066382 (Q1114H, chain A, )
16: VAR_066383 (L1143P, chain A, )
17: VAR_066384 (H1170Y, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_028167
G
25
R
BRCA2_HUMAN
Disease (BC)
---
X
G
25
R
02
UniProt
VAR_028168
W
31
C
BRCA2_HUMAN
Disease (BC)
---
X
W
31
C
03
UniProt
VAR_028169
W
31
R
BRCA2_HUMAN
Disease (BC)
---
X
W
31
R
04
UniProt
VAR_005085
F
32
L
BRCA2_HUMAN
Disease (BC)
---
X
F
32
L
05
UniProt
VAR_054150
P
864
S
PALB2_HUMAN
Polymorphism
45568339
A
P
864
S
06
UniProt
VAR_066373
V
917
A
PALB2_HUMAN
Polymorphism
---
A
V
917
A
07
UniProt
VAR_066374
V
932
M
PALB2_HUMAN
Polymorphism
45624036
A
V
932
M
08
UniProt
VAR_066375
L
939
W
PALB2_HUMAN
Polymorphism
45478192
A
L
939
W
09
UniProt
VAR_066376
I
966
V
PALB2_HUMAN
Polymorphism
---
A
I
966
V
10
UniProt
VAR_066377
G
998
E
PALB2_HUMAN
Polymorphism
45551636
A
G
998
E
11
UniProt
VAR_066378
A
1025
T
PALB2_HUMAN
Polymorphism
---
A
A
1025
T
12
UniProt
VAR_066379
G
1043
A
PALB2_HUMAN
Unclassified
---
A
G
1043
A
13
UniProt
VAR_066380
S
1075
G
PALB2_HUMAN
Polymorphism
---
A
S
1075
G
14
UniProt
VAR_066381
V
1105
A
PALB2_HUMAN
Polymorphism
---
A
V
1105
A
15
UniProt
VAR_066382
Q
1114
H
PALB2_HUMAN
Polymorphism
---
A
Q
1114
H
16
UniProt
VAR_066383
L
1143
P
PALB2_HUMAN
Unclassified
---
A
L
1143
P
17
UniProt
VAR_066384
H
1170
Y
PALB2_HUMAN
Polymorphism
---
A
H
1170
Y
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 1.3a (X:24-37)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2/1.3a
2: Boundary 1.3a/1.4
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
ENST00000380152
1a
ENSE00001184784
chr13:
32889611-32889804
194
BRCA2_HUMAN
-
0
0
-
-
1.2
ENST00000380152
2
ENSE00001484009
chr13:
32890559-32890664
106
BRCA2_HUMAN
1-23
23
0
-
-
1.3a
ENST00000380152
3a
ENSE00000939160
chr13:
32893214-32893462
249
BRCA2_HUMAN
23-106
84
1
X:24-37
14
1.4
ENST00000380152
4
ENSE00000939161
chr13:
32899213-32899321
109
BRCA2_HUMAN
106-142
37
0
-
-
1.5
ENST00000380152
5
ENSE00000939162
chr13:
32900238-32900287
50
BRCA2_HUMAN
142-159
18
0
-
-
1.6
ENST00000380152
6
ENSE00000939163
chr13:
32900379-32900419
41
BRCA2_HUMAN
159-172
14
0
-
-
1.7
ENST00000380152
7
ENSE00000939164
chr13:
32900636-32900750
115
BRCA2_HUMAN
173-211
39
0
-
-
1.8
ENST00000380152
8
ENSE00000939165
chr13:
32903580-32903629
50
BRCA2_HUMAN
211-227
17
0
-
-
1.9
ENST00000380152
9
ENSE00000939166
chr13:
32905056-32905167
112
BRCA2_HUMAN
228-265
38
0
-
-
1.10b
ENST00000380152
10b
ENSE00000939167
chr13:
32906409-32907524
1116
BRCA2_HUMAN
265-637
373
0
-
-
1.11
ENST00000380152
11
ENSE00000939168
chr13:
32910402-32915333
4932
BRCA2_HUMAN
637-2281
1645
0
-
-
1.12
ENST00000380152
12
ENSE00000939169
chr13:
32918695-32918790
96
BRCA2_HUMAN
2281-2313
33
0
-
-
1.13
ENST00000380152
13
ENSE00000939171
chr13:
32920964-32921033
70
BRCA2_HUMAN
2313-2336
24
0
-
-
1.14
ENST00000380152
14
ENSE00000939173
chr13:
32928998-32929425
428
BRCA2_HUMAN
2336-2479
144
0
-
-
1.15
ENST00000380152
15
ENSE00000939174
chr13:
32930565-32930746
182
BRCA2_HUMAN
2479-2539
61
0
-
-
1.16
ENST00000380152
16
ENSE00000939175
chr13:
32931879-32932066
188
BRCA2_HUMAN
2540-2602
63
0
-
-
1.17
ENST00000380152
17
ENSE00001394102
chr13:
32936660-32936830
171
BRCA2_HUMAN
2602-2659
58
0
-
-
1.18
ENST00000380152
18
ENSE00000939177
chr13:
32937316-32937670
355
BRCA2_HUMAN
2659-2777
119
0
-
-
1.19
ENST00000380152
19
ENSE00000939178
chr13:
32944539-32944694
156
BRCA2_HUMAN
2778-2829
52
0
-
-
1.20a
ENST00000380152
20a
ENSE00000939180
chr13:
32945093-32945237
145
BRCA2_HUMAN
2830-2878
49
0
-
-
1.22
ENST00000380152
22
ENSE00000939181
chr13:
32950807-32950928
122
BRCA2_HUMAN
2878-2918
41
0
-
-
1.23b
ENST00000380152
23b
ENSE00000939183
chr13:
32953454-32953652
199
BRCA2_HUMAN
2919-2985
67
0
-
-
1.24a
ENST00000380152
24a
ENSE00000939185
chr13:
32953887-32954050
164
BRCA2_HUMAN
2985-3039
55
0
-
-
1.25
ENST00000380152
25
ENSE00000939187
chr13:
32954144-32954282
139
BRCA2_HUMAN
3040-3086
47
0
-
-
1.26
ENST00000380152
26
ENSE00000939189
chr13:
32968826-32969070
245
BRCA2_HUMAN
3086-3167
82
0
-
-
1.28b
ENST00000380152
28b
ENSE00000939192
chr13:
32971035-32971181
147
BRCA2_HUMAN
3168-3216
49
0
-
-
1.29c
ENST00000380152
29c
ENSE00001184789
chr13:
32972299-32973347
1049
BRCA2_HUMAN
3217-3418
202
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 X
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 (59 KB)
Header - Asym.Unit
Biol.Unit 1 (54 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
3EU7
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help