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2C5N
Biol. Unit 1
Info
Asym.Unit (211 KB)
Biol.Unit 1 (102 KB)
Biol.Unit 2 (103 KB)
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(1)
Title
:
DIFFERENTIAL BINDING OF INHIBITORS TO ACTIVE AND INACTIVE CDK2 PROVIDES INSIGHTS FOR DRUG DESIGN
Authors
:
G. Kontopidis, C. Mcinnes, S. R. Pandalaneni, I. Mcnae, D. Gibson, M. Mezna, M. Thomas, G. Wood, S. Wang, M. D. Walkinshaw, P. M. Fischer
Date
:
30 Oct 05 (Deposition) - 01 Mar 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Differential Inhibition, Transferase, Cdk2, Atp-Binding, Cell Cycle, Cell Division, Polymorphism, Phosphorylation, Nucleotide-Binding, Serine/Threonine-Protein, Kinase, Mitosis, Cyclin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. Kontopidis, C. Mcinnes, S. R. Pandalaneni, I. Mcnae, D. Gibson, M. Mezna, M. Thomas, G. Wood, S. Wang, M. D. Walkinshaw, P. M. Fischer
Differential Binding Of Inhibitors To Active And Inactive Cdk2 Provides Insights For Drug Design.
Chem. Biol. V. 13 201 2006
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: N-[4-(2,4-DIMETHYL-THIAZOL-5-YL)-P... (CK8a)
1b: N-[4-(2,4-DIMETHYL-THIAZOL-5-YL)-P... (CK8b)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CK8
1
Ligand/Ion
N-[4-(2,4-DIMETHYL-THIAZOL-5-YL)-PYRIMIDIN-2-YL]-N',N'-DIMETHYL-BENZENE-1,4-DIAMINE
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Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:15 , ALA A:31 , LYS A:33 , PHE A:80 , GLU A:81 , LEU A:83 , HIS A:84 , GLN A:85 , ASP A:86 , LYS A:89 , LEU A:134 , ASP A:145 , HOH A:2060
BINDING SITE FOR RESIDUE CK8 A1297
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SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_016157 (Y15S, chain A, )
2: VAR_053927 (V18L, chain A, )
3: VAR_041972 (P45L, chain A, )
4: VAR_019988 (T290S, chain A, )
View:
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_016157
Y
15
S
CDK2_HUMAN
Polymorphism
3087335
A
Y
15
S
2
UniProt
VAR_053927
V
18
L
CDK2_HUMAN
Polymorphism
11554376
A
V
18
L
3
UniProt
VAR_041972
P
45
L
CDK2_HUMAN
Unclassified
---
A
P
45
L
4
UniProt
VAR_019988
T
290
S
CDK2_HUMAN
Polymorphism
2069413
A
T
290
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: PROTEIN_KINASE_ATP (A:10-33)
2: PROTEIN_KINASE_ST (A:123-135)
3: CYCLINS (B:211-242)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PROTEIN_KINASE_ATP
PS00107
Protein kinases ATP-binding region signature.
CDK2_HUMAN
10-33
1
A:10-33
-
2
PROTEIN_KINASE_ST
PS00108
Serine/Threonine protein kinases active-site signature.
CDK2_HUMAN
123-135
1
A:123-135
-
3
CYCLINS
PS00292
Cyclins signature.
CCNA2_HUMAN
211-242
1
B:211-242
-
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 6)
Info
All SCOP Domains
1a: SCOP_d2c5nb1 (B:175-309)
1b: SCOP_d2c5nb2 (B:310-432)
1c: SCOP_d2c5nd1 (D:175-309)
1d: SCOP_d2c5nd2 (D:310-432)
2a: SCOP_d2c5na_ (A:)
2b: SCOP_d2c5nc_ (C:)
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Protein Domains
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(
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Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Cyclin-like
(137)
Superfamily
:
Cyclin-like
(137)
Family
:
Cyclin
(117)
Protein domain
:
Cyclin A
(82)
Human (Homo sapiens) [TaxId: 9606]
(73)
1a
d2c5nb1
B:175-309
1b
d2c5nb2
B:310-432
1c
d2c5nd1
D:175-309
1d
d2c5nd2
D:310-432
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
:
Cyclin-dependent PK, CDK2
(340)
Human (Homo sapiens) [TaxId: 9606]
(336)
2a
d2c5na_
A:
2b
d2c5nc_
C:
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CATH Domains
(3, 8)
Info
all CATH domains
1a: CATH_2c5nA01 (A:1-84)
1b: CATH_2c5nC01 (C:1-84)
2a: CATH_2c5nB01 (B:181-194,B:308-432)
2b: CATH_2c5nB02 (B:195-307)
2c: CATH_2c5nD02 (D:195-307)
2d: CATH_2c5nD01 (D:181-194,D:308-432)
3a: CATH_2c5nA02 (A:85-296)
3b: CATH_2c5nC02 (C:85-297)
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(
)
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
2c5nA01
A:1-84
1b
2c5nC01
C:1-84
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cyclin A; domain 1
(136)
Homologous Superfamily
:
[code=1.10.472.10, no name defined]
(99)
Human (Homo sapiens)
(84)
2a
2c5nB01
B:181-194,B:308-432
2b
2c5nB02
B:195-307
2c
2c5nD02
D:195-307
2d
2c5nD01
D:181-194,D:308-432
Topology
:
Transferase(Phosphotransferase); domain 1
(1379)
Homologous Superfamily
:
Transferase(Phosphotransferase) domain 1
(1379)
Human (Homo sapiens)
(1049)
3a
2c5nA02
A:85-296
3b
2c5nC02
C:85-297
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (211 KB)
Header - Asym.Unit
Biol.Unit 1 (102 KB)
Header - Biol.Unit 1
Biol.Unit 2 (103 KB)
Header - Biol.Unit 2
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