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1R01
Theor. Model
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Theoretical Model (99 KB)
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(1)
Title
:
MOLECULAR MODEL OF ACTIVE WILD TYPE HUMAN C-KIT KINASE DOMAIN PHOSPHORYLATED ON TYR 823 AND IN COMPLEX WITH ATP/2MG
Authors
:
J. Vendome, M. Le Bret
Date
:
19 Sep 03 (Deposition) - 21 Sep 04 (Release) - 21 Sep 04 (Revision)
Method
:
THEORETICAL MODEL
Resolution
:
NOT APPLICABLE
Chains
:
Theor. Model : A
Keywords
:
Receptor Tyrosine Kinase, Mastocytosis, Proto Oncogene C-Kit
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Vendome, M. Le Bret
Molecular Model Of Active Wild Type Human C-Kit Kinase Domain Phosphorylated On Tyr 823 And In Complex With Atp/Mg
To Be Published
(for further references see the
PDB file header
)
[
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]
Hetero Components
(3, 4)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
3a: O-PHOSPHOTYROSINE (PTRa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
1
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
MG
2
Ligand/Ion
MAGNESIUM ION
3
PTR
1
Mod. Amino Acid
O-PHOSPHOTYROSINE
[
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]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
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]
SAPs(SNPs)/Variants
(22, 22)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_004104 (E583K, chain A, )
02: VAR_033129 (F584C, chain A, )
03: VAR_004105 (F584L, chain A, )
04: VAR_033130 (G601R, chain A, )
05: VAR_033131 (L656P, chain A, )
06: VAR_004106 (G664R, chain A, )
07: VAR_042023 (C691S, chain A, )
08: VAR_042024 (S715N, chain A, )
09: VAR_042025 (D737N, chain A, )
10: VAR_004107 (R791G, chain A, )
11: VAR_033132 (R796G, chain A, )
12: VAR_042026 (R804W, chain A, )
13: VAR_004108 (G812V, chain A, )
14: VAR_033133 (D816F, chain A, )
15: VAR_033134 (D816H, chain A, )
16: VAR_004109 (D816V, chain A, )
17: VAR_023828 (D816Y, chain A, )
18: VAR_033135 (D820G, chain A, )
19: VAR_023829 (N822K, chain A, )
20: VAR_023830 (A829P, chain A, )
21: VAR_033136 (E839K, chain A, )
22: VAR_033137 (T847P, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_004104
E
583
K
KIT_HUMAN
Disease (PBT)
---
A
E
583
K
02
UniProt
VAR_033129
F
584
C
KIT_HUMAN
Disease (PBT)
28933371
A
F
584
C
03
UniProt
VAR_004105
F
584
L
KIT_HUMAN
Disease (PBT)
---
A
F
584
L
04
UniProt
VAR_033130
G
601
R
KIT_HUMAN
Disease (PBT)
---
A
G
601
R
05
UniProt
VAR_033131
L
656
P
KIT_HUMAN
Disease (PBT)
---
A
L
656
P
06
UniProt
VAR_004106
G
664
R
KIT_HUMAN
Disease (PBT)
---
A
G
664
R
07
UniProt
VAR_042023
C
691
S
KIT_HUMAN
Polymorphism
35200131
A
C
691
S
08
UniProt
VAR_042024
S
715
N
KIT_HUMAN
Polymorphism
56094246
A
S
715
N
09
UniProt
VAR_042025
D
737
N
KIT_HUMAN
Unclassified
---
A
D
737
N
10
UniProt
VAR_004107
R
791
G
KIT_HUMAN
Disease (PBT)
---
A
R
791
G
11
UniProt
VAR_033132
R
796
G
KIT_HUMAN
Disease (PBT)
---
A
R
796
G
12
UniProt
VAR_042026
R
804
W
KIT_HUMAN
Unclassified
---
A
R
804
W
13
UniProt
VAR_004108
G
812
V
KIT_HUMAN
Disease (PBT)
---
A
G
812
V
14
UniProt
VAR_033133
D
816
F
KIT_HUMAN
Unclassified
---
A
D
816
F
15
UniProt
VAR_033134
D
816
H
KIT_HUMAN
Unclassified
28933969
A
D
816
H
16
UniProt
VAR_004109
D
816
V
KIT_HUMAN
Unclassified
---
A
D
816
V
17
UniProt
VAR_023828
D
816
Y
KIT_HUMAN
Unclassified
---
A
D
816
Y
18
UniProt
VAR_033135
D
820
G
KIT_HUMAN
Unclassified
---
A
D
820
G
19
UniProt
VAR_023829
N
822
K
KIT_HUMAN
Unclassified
---
A
N
822
K
20
UniProt
VAR_023830
A
829
P
KIT_HUMAN
Unclassified
---
A
A
829
P
21
UniProt
VAR_033136
E
839
K
KIT_HUMAN
Unclassified
---
A
E
839
K
22
UniProt
VAR_033137
T
847
P
KIT_HUMAN
Disease (PBT)
---
A
T
847
P
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: PROTEIN_KINASE_ATP (A:595-623)
2: RECEPTOR_TYR_KIN_III (A:648-661)
3: PROTEIN_KINASE_TYR (A:788-800)
;
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.
KIT_HUMAN
595-623
1
A:595-623
2
RECEPTOR_TYR_KIN_III
PS00240
Receptor tyrosine kinase class III signature.
KIT_HUMAN
648-661
1
A:648-661
3
PROTEIN_KINASE_TYR
PS00109
Tyrosine protein kinases specific active-site signature.
KIT_HUMAN
788-800
1
A:788-800
[
close PROSITE info
]
Exons
(10, 10)
Info
All Exons
Exon 1.11 (A:576-592)
Exon 1.12 (A:592-627)
Exon 1.13 (A:627-664)
Exon 1.14b (A:664-714)
Exon 1.15 (A:714-745)
Exon 1.16 (A:745-787)
Exon 1.17a (A:788-828)
Exon 1.18 (A:829-866)
Exon 1.19 (A:866-899)
Exon 1.20 (A:899-932)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.10/1.11
02: Boundary 1.11/1.12
03: Boundary 1.12/1.13
04: Boundary 1.13/1.14b
05: Boundary 1.14b/1.15
06: Boundary 1.15/1.16
07: Boundary 1.16/1.17a
08: Boundary 1.17a/1.18
09: Boundary 1.18/1.19
10: Boundary 1.19/1.20
11: Boundary 1.20/1.21b
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
ENST00000288135
1a
ENSE00001905199
chr4:
55524085-55524248
164
KIT_HUMAN
1-23
23
0
-
-
1.2a
ENST00000288135
2a
ENSE00001032350
chr4:
55561678-55561947
270
KIT_HUMAN
23-113
91
0
-
-
1.3
ENST00000288135
3
ENSE00001074448
chr4:
55564450-55564731
282
KIT_HUMAN
113-207
95
0
-
-
1.4
ENST00000288135
4
ENSE00001121859
chr4:
55565796-55565932
137
KIT_HUMAN
207-252
46
0
-
-
1.5
ENST00000288135
5
ENSE00001074426
chr4:
55569890-55570058
169
KIT_HUMAN
253-309
57
0
-
-
1.6
ENST00000288135
6
ENSE00001074418
chr4:
55573264-55573453
190
KIT_HUMAN
309-372
64
0
-
-
1.7
ENST00000288135
7
ENSE00001074452
chr4:
55575590-55575705
116
KIT_HUMAN
372-411
40
0
-
-
1.8
ENST00000288135
8
ENSE00001074431
chr4:
55589750-55589864
115
KIT_HUMAN
411-449
39
0
-
-
1.9b
ENST00000288135
9b
ENSE00001074423
chr4:
55592023-55592216
194
KIT_HUMAN
449-514
66
0
-
-
1.10
ENST00000288135
10
ENSE00001074410
chr4:
55593384-55593490
107
KIT_HUMAN
514-549
36
0
-
-
1.11
ENST00000288135
11
ENSE00001074417
chr4:
55593582-55593708
127
KIT_HUMAN
550-592
43
1
A:576-592
17
1.12
ENST00000288135
12
ENSE00001074438
chr4:
55593989-55594093
105
KIT_HUMAN
592-627
36
1
A:592-627
36
1.13
ENST00000288135
13
ENSE00001074408
chr4:
55594177-55594287
111
KIT_HUMAN
627-664
38
1
A:627-664
38
1.14b
ENST00000288135
14b
ENSE00001074445
chr4:
55595501-55595651
151
KIT_HUMAN
664-714
51
1
A:664-714
51
1.15
ENST00000288135
15
ENSE00001074450
chr4:
55597494-55597585
92
KIT_HUMAN
714-745
32
1
A:714-745
32
1.16
ENST00000288135
16
ENSE00001074441
chr4:
55598037-55598164
128
KIT_HUMAN
745-787
43
1
A:745-787
43
1.17a
ENST00000288135
17a
ENSE00001074435
chr4:
55599236-55599358
123
KIT_HUMAN
788-828
41
1
A:788-828
41
1.18
ENST00000288135
18
ENSE00001074442
chr4:
55602664-55602775
112
KIT_HUMAN
829-866
38
1
A:829-866
38
1.19
ENST00000288135
19
ENSE00001224349
chr4:
55602887-55602986
100
KIT_HUMAN
866-899
34
1
A:866-899
34
1.20
ENST00000288135
20
ENSE00001074415
chr4:
55603341-55603446
106
KIT_HUMAN
899-934
36
1
A:899-932
34
1.21b
ENST00000288135
21b
ENSE00001898693
chr4:
55604595-55606881
2287
KIT_HUMAN
935-976
42
0
-
-
[
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SCOP Domains
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
[
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