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.
3RI1
Asym. Unit
Info
Asym.Unit (106 KB)
Biol.Unit 1 (53 KB)
Biol.Unit 2 (51 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 THE CATALYTIC DOMAIN OF FGFR2 KINASE IN COMPLEX WITH ARQ 069
Authors
:
S. Eathiraj, R. Palma, M. Hirschi, E. Volckova, E. Nakuci, J. Castro, C. T. C. Chan, D. S. France, M. A. Ashwell
Date
:
12 Apr 11 (Deposition) - 04 May 11 (Release) - 19 Oct 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Fgfr1 Kinase, Fgfr2 Kinase, Inactive Conformation, Kinase-Inhibitor Complex, Transferase-Transferase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Eathiraj, R. Palma, M. Hirschi, E. Volckova, E. Nakuci, J. Castro, C. R. Chen, T. C. Chan, D. S. France, M. A. Ashwell
A Novel Mode Of Protein Kinase Inhibition Exploiting Hydrophobic Motifs Of Autoinhibited Kinases: Discovery Of Atp-Independent Inhibitors Of Fibroblast Growth Factor Receptor.
J. Biol. Chem. V. 286 20677 2011
[
close entry info
]
Hetero Components
(2, 11)
Info
All Hetero Components
1a: (6S)-6-PHENYL-5,6-DIHYDROBENZO[H]Q... (3RHa)
1b: (6S)-6-PHENYL-5,6-DIHYDROBENZO[H]Q... (3RHb)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
3RH
2
Ligand/Ion
(6S)-6-PHENYL-5,6-DIHYDROBENZO[H]QUINAZOLIN-2-AMINE
2
SO4
9
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(11, 11)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SO4 A:6 , HOH A:229 , HOH A:324 , VAL A:495 , ALA A:515 , GLU A:534 , VAL A:564 , GLU A:565 , ALA A:567 , LEU A:633
BINDING SITE FOR RESIDUE 3RH A 2
02
AC2
SOFTWARE
HOH A:308 , THR A:635 , ASN A:637 , VAL A:639
BINDING SITE FOR RESIDUE SO4 A 3
03
AC3
SOFTWARE
HOH A:194 , HOH A:215 , ARG A:625 , ARG A:649 , THR A:660 , THR A:661 , ASN A:662 , GLY A:663 , ARG A:664
BINDING SITE FOR RESIDUE SO4 A 7
04
AC4
SOFTWARE
HOH A:127 , THR A:681 , HIS A:682 , GLN A:683 , ARG B:612
BINDING SITE FOR RESIDUE SO4 A 4
05
AC5
SOFTWARE
HOH A:58 , ARG A:580 , GLY A:701 , SER A:702
BINDING SITE FOR RESIDUE SO4 A 11
06
AC6
SOFTWARE
3RH A:2 , HOH A:145 , HOH A:172 , HOH A:286 , HOH A:309 , GLU A:489 , GLY A:490 , CYS A:491 , PHE A:492 , GLY A:493
BINDING SITE FOR RESIDUE SO4 A 6
07
AC7
SOFTWARE
HOH B:326 , HOH B:419 , VAL B:495 , ALA B:515 , LYS B:517 , VAL B:564 , GLU B:565 , ALA B:567 , LEU B:633 , SO4 B:769
BINDING SITE FOR RESIDUE 3RH B 1
08
AC8
SOFTWARE
HOH A:76 , HOH B:226 , VAL B:709 , GLU B:710
BINDING SITE FOR RESIDUE SO4 B 9
09
AC9
SOFTWARE
HOH B:213 , HOH B:330 , ARG B:625 , THR B:660 , ASN B:662 , GLY B:663 , ARG B:664
BINDING SITE FOR RESIDUE SO4 B 8
10
BC1
SOFTWARE
3RH B:1 , HOH B:416 , GLU B:489 , GLY B:490 , CYS B:491 , PHE B:492 , GLY B:493
BINDING SITE FOR RESIDUE SO4 B 769
11
BC2
SOFTWARE
HOH B:137 , HOH B:205 , ARG B:577 , ARG B:580 , GLY B:700 , GLY B:701 , SER B:702
BINDING SITE FOR RESIDUE SO4 B 5
[
close Site info
]
SAPs(SNPs)/Variants
(11, 22)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_023788 (K526E, chain A/B, )
02: VAR_017276 (N549H, chain A/B, )
03: VAR_017277 (E565G, chain A/B, )
04: VAR_046071 (R612T, chain A/B, )
05: VAR_015012 (G613R, chain A/B, )
06: VAR_029884 (A628T, chain A/B, )
07: VAR_017278 (K641R, chain A/B, )
08: VAR_029885 (A648T, chain A/B, )
09: VAR_017279 (K659N, chain A/B, )
10: VAR_017280 (G663E, chain A/B, )
11: VAR_017281 (R678G, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_023788
K
526
E
FGFR2_HUMAN
Disease (FSPC)
---
A/B
K
526
E
02
UniProt
VAR_017276
N
549
H
FGFR2_HUMAN
Disease (CS)
---
A/B
N
549
H
03
UniProt
VAR_017277
E
565
G
FGFR2_HUMAN
Disease (PS)
---
A/B
E
565
G
04
UniProt
VAR_046071
R
612
T
FGFR2_HUMAN
Unclassified
---
A/B
R
612
T
05
UniProt
VAR_015012
G
613
R
FGFR2_HUMAN
Polymorphism
---
A/B
G
613
R
06
UniProt
VAR_029884
A
628
T
FGFR2_HUMAN
Disease (LADDS)
---
A/B
A
628
T
07
UniProt
VAR_017278
K
641
R
FGFR2_HUMAN
Disease (PS)
---
A/B
K
641
R
08
UniProt
VAR_029885
A
648
T
FGFR2_HUMAN
Disease (LADDS)
---
A/B
A
648
T
09
UniProt
VAR_017279
K
659
N
FGFR2_HUMAN
Unclassified
---
A/B
K
659
N
10
UniProt
VAR_017280
G
663
E
FGFR2_HUMAN
Disease (PS)
---
A/B
G
663
E
11
UniProt
VAR_017281
R
678
G
FGFR2_HUMAN
Disease (CS)
---
A/B
R
678
G
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: PROTEIN_KINASE_ATP (A:487-517,B:487-517)
2: PROTEIN_KINASE_TYR (A:622-634,B:622-634)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PROTEIN_KINASE_ATP
PS00107
Protein kinases ATP-binding region signature.
FGFR2_HUMAN
487-517
2
A:487-517
B:487-517
2
PROTEIN_KINASE_TYR
PS00109
Tyrosine protein kinases specific active-site signature.
FGFR2_HUMAN
622-634
2
A:622-634
B:622-634
[
close PROSITE info
]
Exons
(8, 16)
Info
All Exons
Exon 1.21 (A:468-480 | B:468-480)
Exon 1.22 (A:480-521 | B:480-521 (gaps))
Exon 1.23 (A:521-558 | B:521-558)
Exon 1.24 (A:558-621 (gaps) | B:558-621 (gaps...)
Exon 1.25 (A:622-662 | B:622-662)
Exon 1.26 (A:663-686 | B:663-686)
Exon 1.27 (A:686-732 | B:686-732)
Exon 1.28b (A:732-765 | B:732-766)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.19c/1.21
2: Boundary 1.21/1.22
3: Boundary 1.22/1.23
4: Boundary 1.23/1.24
5: Boundary 1.24/1.25
6: Boundary 1.25/1.26
7: Boundary 1.26/1.27
8: Boundary 1.27/1.28b
9: Boundary 1.28b/1.31h
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
1.1h
ENST00000358487
1h
ENSE00001816393
chr10:
123357598-123357476
123
FGFR2_HUMAN
-
0
0
-
-
1.3a
ENST00000358487
3a
ENSE00002141262
chr10:
123353481-123353223
259
FGFR2_HUMAN
1-37
37
0
-
-
1.5b
ENST00000358487
5b
ENSE00001099029
chr10:
123325218-123324952
267
FGFR2_HUMAN
37-126
90
0
-
-
1.6a
ENST00000358487
6a
ENSE00001099020
chr10:
123324093-123324016
78
FGFR2_HUMAN
126-152
27
0
-
-
1.7
ENST00000358487
7
ENSE00001295614
chr10:
123310973-123310804
170
FGFR2_HUMAN
152-208
57
0
-
-
1.8
ENST00000358487
8
ENSE00000812216
chr10:
123298229-123298106
124
FGFR2_HUMAN
209-250
42
0
-
-
1.15
ENST00000358487
15
ENSE00001099035
chr10:
123279683-123279493
191
FGFR2_HUMAN
250-313
64
0
-
-
1.18b
ENST00000358487
18b
ENSE00001146218
chr10:
123276977-123276833
145
FGFR2_HUMAN
314-362
49
0
-
-
1.19c
ENST00000358487
19c
ENSE00001448727
chr10:
123274833-123274631
203
FGFR2_HUMAN
362-429
68
0
-
-
1.21
ENST00000358487
21
ENSE00001015834
chr10:
123263455-123263304
152
FGFR2_HUMAN
430-480
51
2
A:468-480
B:468-480
13
13
1.22
ENST00000358487
22
ENSE00001627890
chr10:
123260461-123260340
122
FGFR2_HUMAN
480-521
42
2
A:480-521
B:480-521 (gaps)
42
42
1.23
ENST00000358487
23
ENSE00001146272
chr10:
123258119-123258009
111
FGFR2_HUMAN
521-558
38
2
A:521-558
B:521-558
38
38
1.24
ENST00000358487
24
ENSE00001146264
chr10:
123256236-123256046
191
FGFR2_HUMAN
558-621
64
2
A:558-621 (gaps)
B:558-621 (gaps)
64
64
1.25
ENST00000358487
25
ENSE00001099037
chr10:
123247627-123247505
123
FGFR2_HUMAN
622-662
41
2
A:622-662
B:622-662
41
41
1.26
ENST00000358487
26
ENSE00001099030
chr10:
123246938-123246868
71
FGFR2_HUMAN
663-686
24
2
A:663-686
B:663-686
24
24
1.27
ENST00000358487
27
ENSE00001146235
chr10:
123245046-123244909
138
FGFR2_HUMAN
686-732
47
2
A:686-732
B:686-732
47
47
1.28b
ENST00000358487
28b
ENSE00002167762
chr10:
123243317-123243212
106
FGFR2_HUMAN
732-767
36
2
A:732-765
B:732-766
34
35
1.31h
ENST00000358487
31h
ENSE00001847306
chr10:
123239535-123237855
1681
FGFR2_HUMAN
768-821
54
0
-
-
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3ri1a_ (A:)
1b: SCOP_d3ri1b_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Protein kinase-like (PK-like)
(2589)
Superfamily
:
Protein kinase-like (PK-like)
(2589)
Family
:
Protein kinases, catalytic subunit
(1977)
Protein domain
:
automated matches
(542)
Human (Homo sapiens) [TaxId: 9606]
(452)
1a
d3ri1a_
A:
1b
d3ri1b_
B:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Pkinase_Tyr_3ri1B01 (B:481-757)
1b: PFAM_Pkinase_Tyr_3ri1B02 (B:481-757)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
PKinase
(934)
Family
:
Pkinase_Tyr
(229)
Homo sapiens (Human)
(202)
1a
Pkinase_Tyr-3ri1B01
B:481-757
1b
Pkinase_Tyr-3ri1B02
B:481-757
[
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
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 (106 KB)
Header - Asym.Unit
Biol.Unit 1 (53 KB)
Header - Biol.Unit 1
Biol.Unit 2 (51 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
3RI1
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
