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.
3KRL
Asym. Unit
Info
Asym.Unit (147 KB)
Biol.Unit 1 (142 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CFMS TYROSINE KINASE IN COMPLEX WITH 5-CYANO-FURAN-2-CARBOXYLIC ACID [4-(4-METHYL-PIPERAZIN-1-YL)-2-PIPERIDIN-1-YL-PHENYL]-AMIDE
Authors
:
C. Schubert
Date
:
18 Nov 09 (Deposition) - 01 Dec 10 (Release) - 14 Dec 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Kinase, Inhibitor, Chimera, Atp-Binding, Disulfide Bond, Glycoprotein, Immunoglobulin Domain, Membrane, Nucleotide-Binding, Phosphoprotein, Proto-Oncogene, Receptor, Transferase, Transmembrane, Tyrosine-Protein Kinase, Transferase-Transferase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. R. Illig, C. L. Manthey, M. J. Wall, S. K. Meegalla, J. Chen, K. J. Wilson, S. K. Ballentine, R. L. Desjarlais, C. Schubert, C. S. Crysler, Y. Chen, C. J. Molloy, M. A. Chaikin, R. R. Donatelli, E. Yurkow, Z. Zhou, M. R. Player, B. E. Tomczuk
Optimization Of A Potent Class Of Arylamide Colony-Stimulating Factor-1 Receptor Inhibitors Leading To Anti-Inflammatory Clinical Candidate 4-Cyano-N-[2-(1-Cyclohexen-1-Yl)-4-[1-[(Dimethylamino) Acetyl]-4-Piperidinyl]Phenyl]-1H-Imidazole-2-Carboxamide (Jnj-28312141).
J. Med. Chem. V. 54 7860 2011
[
close entry info
]
Hetero Components
(2, 2)
Info
All Hetero Components
1a: 5-CYANO-N-[4-(4-METHYLPIPERAZIN-1-... (KRLa)
2a: SULFATE ION (SO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
KRL
1
Ligand/Ion
5-CYANO-N-[4-(4-METHYLPIPERAZIN-1-YL)-2-PIPERIDIN-1-YLPHENYL]FURAN-2-CARBOXAMIDE
2
SO4
1
Ligand/Ion
SULFATE ION
[
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
LYS A:586 , LEU A:588 , LYS A:616 , THR A:663 , GLU A:664 , TYR A:665 , CYS A:666 , LEU A:785 , PHE A:797 , ARG A:801
BINDING SITE FOR RESIDUE KRL A 1
2
AC2
SOFTWARE
HIS A:655 , GLY A:656
BINDING SITE FOR RESIDUE SO4 A 923
[
close Site info
]
SAPs(SNPs)/Variants
(43, 43)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_069292 (K574L, chain A, )
02: VAR_069956 (T587T, chain A, )
03: VAR_067397 (G589E, chain A, )
04: VAR_070853 (G594R, chain A, )
05: VAR_030995 (A622T, chain A, )
06: VAR_067398 (E633K, chain A, )
07: VAR_030996 (L640V, chain A, )
08: VAR_072081 (C653R, chain A, )
09: VAR_017889 (V762M, chain A, )
10: VAR_067401 (M766T, chain A, )
11: VAR_067402 (A770P, chain A, )
12: VAR_069293 (N773N, chain A, )
13: VAR_067404 (I775N, chain A, )
14: VAR_030997 (H776R, chain A, )
15: VAR_030998 (R777G, chain A, )
16: VAR_030999 (R777Q, chain A, )
17: VAR_070854 (D778Y, chain A, )
18: VAR_071460 (R782T, chain A, )
19: VAR_070855 (N783K, chain A, )
20: VAR_067405 (I794T, chain A, )
21: VAR_042203 (V819L, chain A, )
22: VAR_017890 (W821R, chain A, )
23: VAR_069957 (E825K, chain A, )
24: VAR_069294 (S826P, chain A, )
25: VAR_067406 (D837Y, chain A, )
26: VAR_031000 (S840F, chain A, )
27: VAR_031001 (G842R, chain A, )
28: VAR_072082 (I843F, chain A, )
29: VAR_069958 (E847G, chain A, )
30: VAR_031002 (I848F, chain A, )
31: VAR_067407 (F849S, chain A, )
32: VAR_031003 (G858R, chain A, )
33: VAR_031004 (G858S, chain A, )
34: VAR_067409 (L868P, chain A, )
35: VAR_017891 (M875R, chain A, )
36: VAR_067410 (M875T, chain A, )
37: VAR_031005 (P878H, chain A, )
38: VAR_031006 (P878S, chain A, )
39: VAR_067411 (P878T, chain A, )
40: VAR_031007 (F880K, chain A, )
41: VAR_070856 (A881Y, chain A, )
42: VAR_031008 (P901S, chain A, )
43: VAR_072083 (I906T, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_069292
R
470
L
FGFR1_HUMAN
Disease (HH2)
---
A
K
574
L
02
UniProt
VAR_069956
P
483
T
FGFR1_HUMAN
Disease (HH2)
---
A
T
587
T
03
UniProt
VAR_067397
G
589
E
CSF1R_HUMAN
Disease (HDLS)
---
A
G
589
E
04
UniProt
VAR_070853
G
490
R
FGFR1_HUMAN
Disease (HRTFDS)
---
A
G
594
R
05
UniProt
VAR_030995
A
520
T
FGFR1_HUMAN
Disease (HH2)
---
A
A
622
T
06
UniProt
VAR_067398
E
633
K
CSF1R_HUMAN
Disease (HDLS)
---
A
E
633
K
07
UniProt
VAR_030996
I
538
V
FGFR1_HUMAN
Disease (HH2)
---
A
L
640
V
08
UniProt
VAR_072081
C
653
R
CSF1R_HUMAN
Disease (HDLS)
---
A
C
653
R
09
UniProt
VAR_017889
V
607
M
FGFR1_HUMAN
Disease (HH2)
---
A
V
762
M
10
UniProt
VAR_067401
M
766
T
CSF1R_HUMAN
Disease (HDLS)
---
A
M
766
T
11
UniProt
VAR_067402
A
770
P
CSF1R_HUMAN
Disease (HDLS)
---
A
A
770
P
12
UniProt
VAR_069293
K
618
N
FGFR1_HUMAN
Disease (HH2)
---
A
N
773
N
13
UniProt
VAR_067404
I
775
N
CSF1R_HUMAN
Disease (HDLS)
---
A
I
775
N
14
UniProt
VAR_030997
H
621
R
FGFR1_HUMAN
Disease (HH2)
---
A
H
776
R
15
UniProt
VAR_030998
R
622
G
FGFR1_HUMAN
Disease (HH2)
---
A
R
777
G
16
UniProt
VAR_030999
R
622
Q
FGFR1_HUMAN
Disease (HH2)
---
A
R
777
Q
17
UniProt
VAR_070854
D
623
Y
FGFR1_HUMAN
Disease (HRTFDS)
---
A
D
778
Y
18
UniProt
VAR_071460
R
627
T
FGFR1_HUMAN
Disease (HRTFDS)
---
A
R
782
T
19
UniProt
VAR_070855
N
628
K
FGFR1_HUMAN
Disease (HRTFDS)
---
A
N
783
K
20
UniProt
VAR_067405
I
794
T
CSF1R_HUMAN
Disease (HDLS)
---
A
I
794
T
21
UniProt
VAR_042203
V
664
L
FGFR1_HUMAN
Unclassified
---
A
V
819
L
22
UniProt
VAR_017890
W
666
R
FGFR1_HUMAN
Disease (HH2)
---
A
W
821
R
23
UniProt
VAR_069957
E
670
K
FGFR1_HUMAN
Disease (HH2)
---
A
E
825
K
24
UniProt
VAR_069294
A
671
P
FGFR1_HUMAN
Disease (HH2)
---
A
S
826
P
25
UniProt
VAR_067406
D
837
Y
CSF1R_HUMAN
Disease (HDLS)
---
A
D
837
Y
26
UniProt
VAR_031000
S
685
F
FGFR1_HUMAN
Disease (HH2)
---
A
S
840
F
27
UniProt
VAR_031001
G
687
R
FGFR1_HUMAN
Disease (HH2)
---
A
G
842
R
28
UniProt
VAR_072082
I
843
F
CSF1R_HUMAN
Disease (HDLS)
---
A
I
843
F
29
UniProt
VAR_069958
E
692
G
FGFR1_HUMAN
Disease (HH2)
---
A
E
847
G
30
UniProt
VAR_031002
I
693
F
FGFR1_HUMAN
Disease (HH2)
---
A
I
848
F
31
UniProt
VAR_067407
F
849
S
CSF1R_HUMAN
Disease (HDLS)
---
A
F
849
S
32
UniProt
VAR_031003
G
703
R
FGFR1_HUMAN
Disease (HH2)
---
A
G
858
R
33
UniProt
VAR_031004
G
703
S
FGFR1_HUMAN
Disease (HH2)
---
A
G
858
S
34
UniProt
VAR_067409
L
868
P
CSF1R_HUMAN
Disease (HDLS)
---
A
L
868
P
35
UniProt
VAR_017891
M
719
R
FGFR1_HUMAN
Disease (HH2)
---
A
M
875
R
36
UniProt
VAR_067410
M
875
T
CSF1R_HUMAN
Disease (HDLS)
---
A
M
875
T
37
UniProt
VAR_031005
P
722
H
FGFR1_HUMAN
Disease (HH2)
---
A
P
878
H
38
UniProt
VAR_031006
P
722
S
FGFR1_HUMAN
Disease (HH2)
---
A
P
878
S
39
UniProt
VAR_067411
P
878
T
CSF1R_HUMAN
Disease (HDLS)
---
A
P
878
T
40
UniProt
VAR_031007
N
724
K
FGFR1_HUMAN
Disease (HH2)
---
A
F
880
K
41
UniProt
VAR_070856
C
725
Y
FGFR1_HUMAN
Disease (HRTFDS)
---
A
A
881
Y
42
UniProt
VAR_031008
P
745
S
FGFR1_HUMAN
Disease (HH2)
---
A
P
901
S
43
UniProt
VAR_072083
I
906
T
CSF1R_HUMAN
Disease (HDLS)
---
A
I
906
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 4)
Info
All PROSITE Patterns/Profiles
1: PROTEIN_KINASE_ATP (A:588-616,A:588-616)
2: PROTEIN_KINASE_TYR (A:774-785,A:774-786)
3: RECEPTOR_TYR_KIN_III (A:641-654)
;
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.
FGFR1_HUMAN
484-514
1
A:588-616
CSF1R_HUMAN
588-616
1
A:588-616
2
PROTEIN_KINASE_TYR
PS00109
Tyrosine protein kinases specific active-site signature.
FGFR1_HUMAN
619-631
1
A:774-785
CSF1R_HUMAN
774-786
1
A:774-786
3
RECEPTOR_TYR_KIN_III
PS00240
Receptor tyrosine kinase class III signature.
CSF1R_HUMAN
641-654
1
A:641-654
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3krla_ (A:)
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
d3krla_
A:
[
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
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 (147 KB)
Header - Asym.Unit
Biol.Unit 1 (142 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
3KRL
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help