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1KSW
Asym. Unit
Info
Asym.Unit (81 KB)
Biol.Unit 1 (77 KB)
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(1)
Title
:
STRUCTURE OF HUMAN C-SRC TYROSINE KINASE (THR338GLY MUTANT) IN COMPLEX WITH N6-BENZYL ADP
Authors
:
L. A. Witucki, X. Huang, K. Shah, Y. Liu, S. Kyin, M. J. Eck, K. M. Shokat
Date
:
14 Jan 02 (Deposition) - 27 Feb 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Sh3, Sh2, Kinase, Bump Hole, Bump-Hole, Chemical Genetics, Orthogonal Substrate, Atp, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. A. Witucki, X. Huang, K. Shah, Y. Liu, S. Kyin, M. J. Eck, K. M. Shokat
Mutant Tyrosine Kinases With Unnatural Nucleotide Specificity Retain The Structure And Phospho-Acceptor Specificity Of The Wild-Type Enzyme.
Chem. Biol. V. 9 25 2002
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: N6-BENZYL ADENOSINE-5'-DIPHOSPHATE (NBSa)
2a: O-PHOSPHOTYROSINE (PTRa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NBS
1
Ligand/Ion
N6-BENZYL ADENOSINE-5'-DIPHOSPHATE
2
PTR
1
Mod. Amino Acid
O-PHOSPHOTYROSINE
[
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]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LEU A:273 , GLY A:276 , VAL A:281 , ALA A:293 , LYS A:295 , VAL A:323 , ILE A:336 , GLY A:338 , GLU A:339 , TYR A:340 , MET A:341 , ASN A:391 , LEU A:393 , ASP A:404
BINDING SITE FOR RESIDUE NBS A 1
[
close Site info
]
SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_051699 (L173F, chain A, )
2: VAR_041830 (A234T, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051699
L
176
F
SRC_HUMAN
Polymorphism
6018260
A
L
173
F
2
UniProt
VAR_041830
A
237
T
SRC_HUMAN
Polymorphism
34881773
A
A
234
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: SH2 (A:148-245)
2: PROTEIN_KINASE_ATP (A:273-295)
3: PROTEIN_KINASE_TYR (A:382-394)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SH2
PS50001
Src homology 2 (SH2) domain profile.
SRC_HUMAN
151-248
1
A:148-245
2
PROTEIN_KINASE_ATP
PS00107
Protein kinases ATP-binding region signature.
SRC_HUMAN
276-298
1
A:273-295
3
PROTEIN_KINASE_TYR
PS00109
Tyrosine protein kinases specific active-site signature.
SRC_HUMAN
385-397
1
A:382-394
[
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]
Exons
(10, 10)
Info
All Exons
Exon 1.7b (A:84-114)
Exon 1.9b (A:114-147)
Exon 1.9d (A:147-182)
Exon 1.10 (A:182-232)
Exon 1.12b (A:232-284)
Exon 1.13a (A:284-344)
Exon 1.14a (A:344-369)
Exon 1.15b (A:370-421)
Exon 1.16a (A:421-465)
Exon 1.17c (A:465-533)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.6b/1.7b
02: Boundary 1.7b/1.9b
03: Boundary 1.9b/1.9d
04: Boundary 1.9d/1.10
05: Boundary 1.10/1.12b
06: Boundary 1.12b/1.13a
07: Boundary 1.13a/1.14a
08: Boundary 1.14a/1.15b
09: Boundary 1.15b/1.16a
10: Boundary 1.16a/1.17c
11: Boundary 1.17c/-
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
1.2b
ENST00000373578
2b
ENSE00001460945
chr20:
35974557-35974658
102
SRC_HUMAN
-
0
0
-
-
1.3
ENST00000373578
3
ENSE00001460974
chr20:
35993607-35993680
74
SRC_HUMAN
-
0
0
-
-
1.4d
ENST00000373578
4d
ENSE00001460973
chr20:
36011022-36011190
169
SRC_HUMAN
-
0
0
-
-
1.6b
ENST00000373578
6b
ENSE00000661877
chr20:
36012553-36012806
254
SRC_HUMAN
1-84
84
0
-
-
1.7b
ENST00000373578
7b
ENSE00000661878
chr20:
36014478-36014577
100
SRC_HUMAN
84-117
34
1
A:84-114
31
1.9b
ENST00000373578
9b
ENSE00000661879
chr20:
36022298-36022396
99
SRC_HUMAN
117-150
34
1
A:114-147
34
1.9d
ENST00000373578
9d
ENSE00000661880
chr20:
36022577-36022680
104
SRC_HUMAN
150-185
36
1
A:147-182
36
1.10
ENST00000373578
10
ENSE00000661881
chr20:
36024565-36024714
150
SRC_HUMAN
185-235
51
1
A:182-232
51
1.12b
ENST00000373578
12b
ENSE00000661882
chr20:
36026102-36026257
156
SRC_HUMAN
235-287
53
1
A:232-284
53
1.13a
ENST00000373578
13a
ENSE00001654044
chr20:
36028518-36028697
180
SRC_HUMAN
287-347
61
1
A:284-344
61
1.14a
ENST00000373578
14a
ENSE00000800501
chr20:
36030005-36030081
77
SRC_HUMAN
347-372
26
1
A:344-369
26
1.15b
ENST00000373578
15b
ENSE00000661885
chr20:
36030838-36030991
154
SRC_HUMAN
373-424
52
1
A:370-421
52
1.16a
ENST00000373578
16a
ENSE00001785449
chr20:
36031152-36031283
132
SRC_HUMAN
424-468
45
1
A:421-465
45
1.17c
ENST00000373578
17c
ENSE00001460955
chr20:
36031574-36034453
2880
SRC_HUMAN
468-536
69
1
A:465-533
69
[
close EXON info
]
SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d1kswa1 (A:84-145)
2a: SCOP_d1kswa3 (A:249-533)
3a: SCOP_d1kswa2 (A:146-248)
View:
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(
)
(
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(
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)
Superfamilies
(
)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
SH3-like barrel
(1035)
Superfamily
:
SH3-domain
(369)
Family
:
SH3-domain
(255)
Protein domain
:
c-src protein tyrosine kinase
(17)
Human (Homo sapiens) [TaxId: 9606]
(6)
1a
d1kswa1
A:84-145
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
:
c-src tyrosine kinase
(46)
Human (Homo sapiens) [TaxId: 9606]
(12)
2a
d1kswa3
A:249-533
Fold
:
SH2-like
(260)
Superfamily
:
SH2 domain
(260)
Family
:
SH2 domain
(225)
Protein domain
:
c-src tyrosine kinase
(62)
Human (Homo sapiens) [TaxId: 9606]
(46)
3a
d1kswa2
A:146-248
[
close SCOP info
]
CATH Domains
(4, 4)
Info
all CATH domains
1a: CATH_1kswA03 (A:259-344)
2a: CATH_1kswA02 (A:146-246)
3a: CATH_1kswA04 (A:345-519)
4a: CATH_1kswA01 (A:84-145)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Phosphorylase Kinase; domain 1
(1392)
Homologous Superfamily
:
Phosphorylase Kinase; domain 1
(1392)
Human (Homo sapiens)
(1036)
1a
1kswA03
A:259-344
Topology
:
SHC Adaptor Protein
(206)
Homologous Superfamily
:
SHC Adaptor Protein
(206)
Human (Homo sapiens)
(147)
2a
1kswA02
A:146-246
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Transferase(Phosphotransferase); domain 1
(1379)
Homologous Superfamily
:
Transferase(Phosphotransferase) domain 1
(1379)
Human (Homo sapiens)
(1049)
3a
1kswA04
A:345-519
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
SH3 type barrels.
(648)
Homologous Superfamily
:
SH3 Domains
(267)
Human (Homo sapiens)
(133)
4a
1kswA01
A:84-145
[
close CATH info
]
Pfam Domains
(3, 3)
Info
all PFAM domains
1a: PFAM_Pkinase_Tyr_1kswA01 (A:267-516)
2a: PFAM_SH3_1_1kswA02 (A:87-134)
3a: PFAM_SH2_1kswA03 (A:148-230)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
PKinase
(934)
Family
:
Pkinase_Tyr
(229)
Homo sapiens (Human)
(202)
1a
Pkinase_Tyr-1kswA01
A:267-516
Clan
:
SH3
(175)
Family
:
SH3_1
(141)
Homo sapiens (Human)
(69)
2a
SH3_1-1kswA02
A:87-134
Clan
:
no clan defined [family: SH2]
(119)
Family
:
SH2
(119)
Homo sapiens (Human)
(79)
3a
SH2-1kswA03
A:148-230
[
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]
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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