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.
3PFV
Asym. Unit
Info
Asym.Unit (232 KB)
Biol.Unit 1 (112 KB)
Biol.Unit 2 (113 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 CBL-B TKB DOMAIN IN COMPLEX WITH EGFR PY1069 PEPTIDE
Authors
:
A. Chaikuad, K. Guo, C. D. O. Cooper, V. Ayinampudi, T. Krojer, J. R. C. Mu M. Vollmar, P. Canning, O. Gileadi, F. Von Delft, C. H. Arrowsmith, J. A. M. Edwards, C. Bountra, A. Bullock, Structural Genomics Consort
Date
:
29 Oct 10 (Deposition) - 08 Dec 10 (Release) - 02 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.27
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Structural Genomics, Structural Genomics Consortium, Sgc, Signal Transduction Protein, Cbl-B, Sh3-Binding Protein, Ligase-Protein Binding Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Chaikuad, K. Guo, C. D. O. Cooper, V. Ayinampudi, T. Krojer, J. R. C. Muniz, M. Vollmar, P. Canning, O. Gileadi, F. Von Delft, C. H. Arrowsmith, J. Weigelt, A. M. Edwards, C. Bountra, A. Bullock, Structural Genomics Consortium (Sgc)
Crystal Structure Of Cbl-B Tkb Domain In Complex With Egfr Py1069 Peptide
To Be Published
[
close entry info
]
Hetero Components
(6, 17)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
4a: TETRAETHYLENE GLYCOL (PG4a)
5a: O-PHOSPHOTYROSINE (PTRa)
5b: O-PHOSPHOTYROSINE (PTRb)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
6d: SULFATE ION (SO4d)
6e: SULFATE ION (SO4e)
6f: SULFATE ION (SO4f)
6g: SULFATE ION (SO4g)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
2
Ligand/Ion
CHLORIDE ION
2
EDO
3
Ligand/Ion
1,2-ETHANEDIOL
3
NA
2
Ligand/Ion
SODIUM ION
4
PG4
1
Ligand/Ion
TETRAETHYLENE GLYCOL
5
PTR
2
Mod. Amino Acid
O-PHOSPHOTYROSINE
6
SO4
7
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(15, 15)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:221 , THR A:223 , ASN A:225 , TYR A:227 , GLU A:232 , HOH A:432
BINDING SITE FOR RESIDUE NA A 1
02
AC2
SOFTWARE
ASN A:104 , GLU A:105 , TYR A:106 , HOH A:409 , HOH A:410
BINDING SITE FOR RESIDUE CL A 3
03
AC3
SOFTWARE
HIS A:312 , ASN A:313
BINDING SITE FOR RESIDUE CL A 4
04
AC4
SOFTWARE
THR A:174 , LYS A:175 , ARG A:238 , GLN A:241 , HOH A:444
BINDING SITE FOR RESIDUE SO4 A 2
05
AC5
SOFTWARE
ARG A:335 , SER A:336 , GLN B:206
BINDING SITE FOR RESIDUE SO4 A 352
06
AC6
SOFTWARE
ARG A:325 , HOH A:393 , ARG B:44 , LYS B:48
BINDING SITE FOR RESIDUE SO4 A 6
07
AC7
SOFTWARE
ARG A:172 , ARG B:291 , LEU D:1066 , ARG D:1068 , PTR D:1069
BINDING SITE FOR RESIDUE SO4 A 7
08
AC8
SOFTWARE
LYS A:195 , ARG A:198 , ARG B:272
BINDING SITE FOR RESIDUE EDO A 8
09
AC9
SOFTWARE
HOH A:430
BINDING SITE FOR RESIDUE EDO A 9
10
BC1
SOFTWARE
ARG A:272 , HOH A:437 , ARG B:198
BINDING SITE FOR RESIDUE EDO A 10
11
BC2
SOFTWARE
ASP B:221 , THR B:223 , ASN B:225 , TYR B:227 , GLU B:232 , HOH B:388
BINDING SITE FOR RESIDUE NA B 2
12
BC3
SOFTWARE
LYS B:175 , ARG B:238 , GLN B:241
BINDING SITE FOR RESIDUE SO4 B 1
13
BC4
SOFTWARE
GLN A:206 , HOH B:25 , ARG B:335 , SER B:336 , HOH B:392 , HOH B:406
BINDING SITE FOR RESIDUE SO4 B 3
14
BC5
SOFTWARE
GLN B:138 , ARG B:141
BINDING SITE FOR RESIDUE SO4 B 5
15
BC6
SOFTWARE
ARG A:141 , HOH A:436 , TRP B:194 , MET B:214 , HOH B:398
BINDING SITE FOR RESIDUE PG4 B 11
[
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
(9, 17)
Info
All Exons
Exon 1.3 (A:44-56 | B:40-56)
Exon 1.4 (A:57-140 | B:57-140)
Exon 1.5 (A:140-189 | B:140-189)
Exon 1.6 (A:189-241 | B:189-241)
Exon 1.7 (A:242-282 | B:242-282)
Exon 1.8 (A:282-328 | B:282-328)
Exon 1.9 (A:328-345 | B:328-347)
Exon 1.10 (- | B:348-349)
Exon 2.33a (C:1066-1075 | D:1066-1076)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.2d/1.3
02: Boundary 1.3/1.4
03: Boundary 1.4/1.5
04: Boundary 1.5/1.6
05: Boundary 1.6/1.7
06: Boundary 1.7/1.8
07: Boundary 1.8/1.9
08: Boundary 1.9/1.10
09: Boundary 1.10/1.11
10: Boundary 2.32/2.33a
11: Boundary 2.33a/2.34b
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
1.2d
ENST00000264122
2d
ENSE00001340691
chr3:
105587887-105587580
308
CBLB_HUMAN
-
0
0
-
-
1.3
ENST00000264122
3
ENSE00002109512
chr3:
105586435-105586254
182
CBLB_HUMAN
1-56
56
2
A:44-56
B:40-56
13
17
1.4
ENST00000264122
4
ENSE00002192869
chr3:
105572508-105572258
251
CBLB_HUMAN
57-140
84
2
A:57-140
B:57-140
84
84
1.5
ENST00000264122
5
ENSE00001686511
chr3:
105495386-105495240
147
CBLB_HUMAN
140-189
50
2
A:140-189
B:140-189
50
50
1.6
ENST00000264122
6
ENSE00001628201
chr3:
105470462-105470306
157
CBLB_HUMAN
189-241
53
2
A:189-241
B:189-241
53
53
1.7
ENST00000264122
7
ENSE00001692048
chr3:
105464882-105464761
122
CBLB_HUMAN
242-282
41
2
A:242-282
B:242-282
41
41
1.8
ENST00000264122
8
ENSE00001696958
chr3:
105459475-105459338
138
CBLB_HUMAN
282-328
47
2
A:282-328
B:282-328
47
47
1.9
ENST00000264122
9
ENSE00001616258
chr3:
105456102-105456015
88
CBLB_HUMAN
328-357
30
2
A:328-345
B:328-347
18
20
1.10
ENST00000264122
10
ENSE00001694160
chr3:
105452984-105452853
132
CBLB_HUMAN
358-401
44
1
-
B:348-349
-
2
1.11
ENST00000264122
11
ENSE00001654827
chr3:
105439094-105438891
204
CBLB_HUMAN
402-469
68
0
-
-
1.12
ENST00000264122
12
ENSE00001767402
chr3:
105423017-105422832
186
CBLB_HUMAN
470-531
62
0
-
-
1.13a
ENST00000264122
13a
ENSE00001607504
chr3:
105421303-105420938
366
CBLB_HUMAN
532-653
122
0
-
-
1.14
ENST00000264122
14
ENSE00000774846
chr3:
105412432-105412338
95
CBLB_HUMAN
654-685
32
0
-
-
1.15
ENST00000264122
15
ENSE00000774845
chr3:
105404310-105404164
147
CBLB_HUMAN
685-734
50
0
-
-
1.16b
ENST00000264122
16b
ENSE00000774844
chr3:
105400662-105400568
95
CBLB_HUMAN
734-766
33
0
-
-
1.16d
ENST00000264122
16d
ENSE00000774843
chr3:
105400454-105400323
132
CBLB_HUMAN
766-810
45
0
-
-
1.17
ENST00000264122
17
ENSE00000774842
chr3:
105397415-105397275
141
CBLB_HUMAN
810-857
48
0
-
-
1.18b
ENST00000264122
18b
ENSE00000774841
chr3:
105389196-105389077
120
CBLB_HUMAN
857-897
41
0
-
-
1.19d
ENST00000264122
19d
ENSE00001755904
chr3:
105378073-105374305
3769
CBLB_HUMAN
897-982
86
0
-
-
2.1e
ENST00000275493
1e
ENSE00001841347
chr7:
55086794-55087058
265
EGFR_HUMAN
1-30
30
0
-
-
2.5
ENST00000275493
5
ENSE00001715021
chr7:
55209979-55210130
152
EGFR_HUMAN
30-80
51
0
-
-
2.6
ENST00000275493
6
ENSE00001704157
chr7:
55210998-55211181
184
EGFR_HUMAN
81-142
62
0
-
-
2.7b
ENST00000275493
7b
ENSE00001798125
chr7:
55214299-55214433
135
EGFR_HUMAN
142-187
46
0
-
-
2.8
ENST00000275493
8
ENSE00001683983
chr7:
55218987-55219055
69
EGFR_HUMAN
187-210
24
0
-
-
2.9
ENST00000275493
9
ENSE00001652975
chr7:
55220239-55220357
119
EGFR_HUMAN
210-249
40
0
-
-
2.10
ENST00000275493
10
ENSE00001623732
chr7:
55221704-55221845
142
EGFR_HUMAN
250-297
48
0
-
-
2.11
ENST00000275493
11
ENSE00001751179
chr7:
55223523-55223639
117
EGFR_HUMAN
297-336
40
0
-
-
2.12
ENST00000275493
12
ENSE00001084929
chr7:
55224226-55224352
127
EGFR_HUMAN
336-378
43
0
-
-
2.13a
ENST00000275493
13a
ENSE00001084931
chr7:
55224452-55224525
74
EGFR_HUMAN
378-403
26
0
-
-
2.14
ENST00000275493
14
ENSE00001084926
chr7:
55225356-55225446
91
EGFR_HUMAN
403-433
31
0
-
-
2.15
ENST00000275493
15
ENSE00001084941
chr7:
55227832-55228031
200
EGFR_HUMAN
433-500
68
0
-
-
2.16
ENST00000275493
16
ENSE00001084939
chr7:
55229192-55229324
133
EGFR_HUMAN
500-544
45
0
-
-
2.17
ENST00000275493
17
ENSE00001084927
chr7:
55231426-55231516
91
EGFR_HUMAN
544-574
31
0
-
-
2.18
ENST00000275493
18
ENSE00001627115
chr7:
55232973-55233130
158
EGFR_HUMAN
575-627
53
0
-
-
2.21
ENST00000275493
21
ENSE00001768076
chr7:
55238868-55238906
39
EGFR_HUMAN
627-640
14
0
-
-
2.23
ENST00000275493
23
ENSE00001699330
chr7:
55240676-55240817
142
EGFR_HUMAN
640-687
48
0
-
-
2.24
ENST00000275493
24
ENSE00001778519
chr7:
55241614-55241736
123
EGFR_HUMAN
688-728
41
0
-
-
2.25
ENST00000275493
25
ENSE00001756460
chr7:
55242415-55242513
99
EGFR_HUMAN
729-761
33
0
-
-
2.26
ENST00000275493
26
ENSE00001601336
chr7:
55248986-55249171
186
EGFR_HUMAN
762-823
62
0
-
-
2.27
ENST00000275493
27
ENSE00001681524
chr7:
55259412-55259567
156
EGFR_HUMAN
824-875
52
0
-
-
2.28a
ENST00000275493
28a
ENSE00001631695
chr7:
55260459-55260534
76
EGFR_HUMAN
876-901
26
0
-
-
2.29
ENST00000275493
29
ENSE00001779947
chr7:
55266410-55266556
147
EGFR_HUMAN
901-950
50
0
-
-
2.30a
ENST00000275493
30a
ENSE00001790701
chr7:
55268009-55268106
98
EGFR_HUMAN
950-982
33
0
-
-
2.31
ENST00000275493
31
ENSE00001801208
chr7:
55268881-55269048
168
EGFR_HUMAN
983-1038
56
0
-
-
2.32
ENST00000275493
32
ENSE00001773562
chr7:
55269428-55269475
48
EGFR_HUMAN
1039-1054
16
0
-
-
2.33a
ENST00000275493
33a
ENSE00001795780
chr7:
55270210-55270318
109
EGFR_HUMAN
1055-1091
37
2
C:1066-1075
D:1066-1076
10
11
2.34b
ENST00000275493
34b
ENSE00001245887
chr7:
55272949-55279321
6373
EGFR_HUMAN
1091-1210
120
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
(3, 6)
Info
all PFAM domains
1a: PFAM_Cbl_N2_3pfvB01 (B:170-254)
1b: PFAM_Cbl_N2_3pfvB02 (B:170-254)
2a: PFAM_Cbl_N3_3pfvB03 (B:256-341)
2b: PFAM_Cbl_N3_3pfvB04 (B:256-341)
3a: PFAM_Cbl_N_3pfvB05 (B:40-168)
3b: PFAM_Cbl_N_3pfvB06 (B:40-168)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Cbl_N2]
(5)
Family
:
Cbl_N2
(5)
Homo sapiens (Human)
(5)
1a
Cbl_N2-3pfvB01
B:170-254
1b
Cbl_N2-3pfvB02
B:170-254
Clan
:
no clan defined [family: Cbl_N3]
(5)
Family
:
Cbl_N3
(5)
Homo sapiens (Human)
(5)
2a
Cbl_N3-3pfvB03
B:256-341
2b
Cbl_N3-3pfvB04
B:256-341
Clan
:
no clan defined [family: Cbl_N]
(5)
Family
:
Cbl_N
(5)
Homo sapiens (Human)
(5)
3a
Cbl_N-3pfvB05
B:40-168
3b
Cbl_N-3pfvB06
B:40-168
[
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
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 (232 KB)
Header - Asym.Unit
Biol.Unit 1 (112 KB)
Header - Biol.Unit 1
Biol.Unit 2 (113 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
3PFV
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help