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.
4A4B
Asym. Unit
Info
Asym.Unit (194 KB)
Biol.Unit 1 (185 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF MODIFIED PHOSPHOTYR371-C-CBL-UBCH5B-ZAP-70 COMPLEX
Authors
:
H. Dou, L. Buetow, A. Hock, G. J. Sibbet, K. H. Vousden, D. T. Huang
Date
:
08 Oct 11 (Deposition) - 25 Jan 12 (Release) - 29 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.79
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Ligase-Transferase Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Dou, L. Buetow, A. Hock, G. J. Sibbet, K. H. Vousden, D. T. Huang
Structural Basis For Autoinhibition And Phosphorylation-Dependent Activation Of C-Cbl
Nat. Struct. Mol. Biol. V. 19 184 2012
[
close entry info
]
Hetero Components
(3, 5)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
2a: O-PHOSPHOTYROSINE (PTRa)
2b: O-PHOSPHOTYROSINE (PTRb)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
1
Ligand/Ion
CALCIUM ION
2
PTR
2
Mod. Amino Acid
O-PHOSPHOTYROSINE
3
ZN
2
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:381 , CYS A:384 , CYS A:401 , CYS A:404
BINDING SITE FOR RESIDUE ZN A1436
2
AC2
SOFTWARE
CYS A:396 , HIS A:398 , CYS A:416 , CYS A:419
BINDING SITE FOR RESIDUE ZN A1437
3
AC3
SOFTWARE
ASP A:229 , THR A:231 , ASN A:233 , TYR A:235 , GLU A:240
BINDING SITE FOR RESIDUE CA A1438
[
close Site info
]
SAPs(SNPs)/Variants
(6, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_071040 (K287R, chain A, )
2: VAR_064332 (Q367P, chain A, )
3: VAR_071042 (Y371H, chain A, )
4: VAR_064333 (K382E, chain A, )
5: VAR_064334 (D390Y, chain A, )
6: VAR_064335 (R420Q, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_071040
K
287
R
CBL_HUMAN
Unclassified
---
A
K
287
R
2
UniProt
VAR_064332
Q
367
P
CBL_HUMAN
Disease (NSLL)
---
A
Q
367
P
3
UniProt
VAR_071042
Y
371
H
CBL_HUMAN
Unclassified
267606706
A
Y
371
H
4
UniProt
VAR_064333
K
382
E
CBL_HUMAN
Disease (NSLL)
---
A
K
382
E
5
UniProt
VAR_064334
D
390
Y
CBL_HUMAN
Disease (NSLL)
---
A
D
390
Y
6
UniProt
VAR_064335
R
420
Q
CBL_HUMAN
Disease (NSLL)
---
A
R
420
Q
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 4)
Info
All PROSITE Patterns/Profiles
1: UBIQUITIN_CONJUGAT_2 (C:4-136)
2: UBIQUITIN_CONJUGAT_1 (C:74-89)
3: ZF_RING_2 (A:381-420)
4: ZF_RING_1 (A:396-405)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UBIQUITIN_CONJUGAT_2
PS50127
Ubiquitin-conjugating enzymes family profile.
UB2D2_HUMAN
4-136
1
C:4-136
2
UBIQUITIN_CONJUGAT_1
PS00183
Ubiquitin-conjugating enzymes active site.
UB2D2_HUMAN
74-89
1
C:74-89
3
ZF_RING_2
PS50089
Zinc finger RING-type profile.
CBL_HUMAN
381-420
1
A:381-420
4
ZF_RING_1
PS00518
Zinc finger RING-type signature.
CBL_HUMAN
396-405
1
A:396-405
[
close PROSITE info
]
Exons
(18, 18)
Info
All Exons
Exon 1.1 (A:48-65)
Exon 1.2 (A:66-148)
Exon 1.3 (A:148-197)
Exon 1.4 (A:197-249)
Exon 1.5 (A:250-290)
Exon 1.6 (A:290-336)
Exon 1.7 (A:336-365)
Exon 1.8 (A:366-409)
Exon 1.9 (A:410-435)
Exon 2.9e (B:4-12)
Exon 2.9g (B:12-12)
Exon 3.2d (C:2-8)
Exon 3.6a (C:9-30)
Exon 3.7a (C:30-40)
Exon 3.8 (C:41-66)
Exon 3.9 (C:67-102)
Exon 3.10b (C:102-133)
Exon 3.11b (C:133-147)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/1.7
08: Boundary 1.7/1.8
09: Boundary 1.8/1.9
10: Boundary 1.9/1.10
11: Boundary 2.9a/2.9e
12: Boundary 2.9e/2.9g
13: Boundary 2.9g/2.9i
14: Boundary -/3.2d
15: Boundary 3.2d/3.6a
16: Boundary 3.6a/3.7a
17: Boundary 3.7a/3.8
18: Boundary 3.8/3.9
19: Boundary 3.9/3.10b
20: Boundary 3.10b/3.11b
21: Boundary 3.11b/3.11f
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
ENST00000264033
1
ENSE00001240819
chr11:
119076752-119077322
571
CBL_HUMAN
1-65
65
1
A:48-65
18
1.2
ENST00000264033
2
ENSE00001240799
chr11:
119103158-119103405
248
CBL_HUMAN
66-148
83
1
A:66-148
83
1.3
ENST00000264033
3
ENSE00001240795
chr11:
119142445-119142591
147
CBL_HUMAN
148-197
50
1
A:148-197
50
1.4
ENST00000264033
4
ENSE00001240790
chr11:
119144578-119144734
157
CBL_HUMAN
197-249
53
1
A:197-249
53
1.5
ENST00000264033
5
ENSE00001240782
chr11:
119145542-119145663
122
CBL_HUMAN
250-290
41
1
A:250-290
41
1.6
ENST00000264033
6
ENSE00001240776
chr11:
119146707-119146844
138
CBL_HUMAN
290-336
47
1
A:290-336
47
1.7
ENST00000264033
7
ENSE00001128289
chr11:
119148467-119148554
88
CBL_HUMAN
336-365
30
1
A:336-365
30
1.8
ENST00000264033
8
ENSE00001795866
chr11:
119148876-119149007
132
CBL_HUMAN
366-409
44
1
A:366-409
44
1.9
ENST00000264033
9
ENSE00001128273
chr11:
119149220-119149423
204
CBL_HUMAN
410-477
68
1
A:410-435
26
1.10
ENST00000264033
10
ENSE00000796209
chr11:
119155679-119155810
132
CBL_HUMAN
478-521
44
0
-
-
1.11
ENST00000264033
11
ENSE00001206751
chr11:
119155899-119156276
378
CBL_HUMAN
522-647
126
0
-
-
1.12
ENST00000264033
12
ENSE00000796211
chr11:
119158562-119158656
95
CBL_HUMAN
648-679
32
0
-
-
1.13
ENST00000264033
13
ENSE00000796212
chr11:
119167628-119167744
117
CBL_HUMAN
679-718
40
0
-
-
1.14
ENST00000264033
14
ENSE00000796213
chr11:
119168094-119168191
98
CBL_HUMAN
718-751
34
0
-
-
1.15
ENST00000264033
15
ENSE00000796214
chr11:
119169068-119169250
183
CBL_HUMAN
751-812
62
0
-
-
1.16
ENST00000264033
16
ENSE00001238481
chr11:
119170205-119177651
7447
CBL_HUMAN
812-906
95
0
-
-
2.1a
ENST00000264972
1a
ENSE00001915964
chr2:
98330023-98330137
115
ZAP70_HUMAN
-
0
0
-
-
2.2
ENST00000264972
2
ENSE00001346286
chr2:
98330379-98330457
79
ZAP70_HUMAN
-
0
0
-
-
2.3
ENST00000264972
3
ENSE00002151593
chr2:
98340479-98340901
423
ZAP70_HUMAN
1-134
134
0
-
-
2.6
ENST00000264972
6
ENSE00001726390
chr2:
98341555-98341715
161
ZAP70_HUMAN
135-188
54
0
-
-
2.7b
ENST00000264972
7b
ENSE00001702700
chr2:
98349346-98349484
139
ZAP70_HUMAN
188-234
47
0
-
-
2.8
ENST00000264972
8
ENSE00001779223
chr2:
98349588-98349675
88
ZAP70_HUMAN
235-264
30
0
-
-
2.9a
ENST00000264972
9a
ENSE00001597048
chr2:
98349760-98349806
47
ZAP70_HUMAN
264-279
16
0
-
-
2.9e
ENST00000264972
9e
ENSE00001789090
chr2:
98350007-98350058
52
ZAP70_HUMAN
280-297
18
1
B:4-12
9
2.9g
ENST00000264972
9g
ENSE00001695806
chr2:
98350983-98351175
193
ZAP70_HUMAN
297-361
65
1
B:12-12
1
2.9i
ENST00000264972
9i
ENSE00001072211
chr2:
98351713-98351919
207
ZAP70_HUMAN
361-430
70
0
-
-
2.10
ENST00000264972
10
ENSE00001038176
chr2:
98353936-98354128
193
ZAP70_HUMAN
430-494
65
0
-
-
2.11a
ENST00000264972
11a
ENSE00001506092
chr2:
98354220-98354360
141
ZAP70_HUMAN
495-541
47
0
-
-
2.11d
ENST00000264972
11d
ENSE00001038187
chr2:
98354458-98354570
113
ZAP70_HUMAN
542-579
38
0
-
-
2.12c
ENST00000264972
12c
ENSE00001267184
chr2:
98355838-98356323
486
ZAP70_HUMAN
579-619
41
0
-
-
3.2d
ENST00000398734
2d
ENSE00002067174
chr5:
138941311-138941400
90
UB2D2_HUMAN
1-8
8
1
C:2-8
7
3.6a
ENST00000398734
6a
ENSE00001727928
chr5:
138979957-138980020
64
UB2D2_HUMAN
9-30
22
1
C:9-30
22
3.7a
ENST00000398734
7a
ENSE00000898561
chr5:
138994171-138994202
32
UB2D2_HUMAN
30-40
11
1
C:30-40
11
3.8
ENST00000398734
8
ENSE00001673964
chr5:
138994282-138994359
78
UB2D2_HUMAN
41-66
26
1
C:41-66
26
3.9
ENST00000398734
9
ENSE00001785808
chr5:
138994446-138994551
106
UB2D2_HUMAN
67-102
36
1
C:67-102
36
3.10b
ENST00000398734
10b
ENSE00001694979
chr5:
139002953-139003046
94
UB2D2_HUMAN
102-133
32
1
C:102-133
32
3.11b
ENST00000398734
11b
ENSE00002035469
chr5:
139006341-139006642
302
UB2D2_HUMAN
133-147
15
1
C:133-147
15
3.11f
ENST00000398734
11f
ENSE00002075824
chr5:
139007137-139007271
135
UB2D2_HUMAN
-
0
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d4a4bc_ (C:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
UBC-like
(176)
Superfamily
:
UBC-like
(176)
Family
:
UBC-related
(135)
Protein domain
:
Ubiquitin conjugating enzyme, UBC
(84)
Human (Homo sapiens), ubch5b [TaxId: 9606]
(11)
1a
d4a4bc_
C:
[
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
Chain C
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 (194 KB)
Header - Asym.Unit
Biol.Unit 1 (185 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
4A4B
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
