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2VN9
Biol. Unit 1
Info
Asym.Unit (106 KB)
Biol.Unit 1 (52 KB)
Biol.Unit 2 (51 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN CALCIUM CALMODULIN DEPENDENT PROTEIN KINASE II DELTA ISOFORM 1, CAMKD
Authors
:
A. K. Roos, P. Rellos, E. Salah, A. C. W. Pike, O. Fedorov, E. S. Pilka, F. V C. H. Arrowsmith, J. Weigelt, A. Edwards, C. Bountra, S. Knapp
Date
:
31 Jan 08 (Deposition) - 26 Feb 08 (Release) - 10 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Serine/Threonine-Protein Kinase, Serine-Threonine Kinase, Cellular Differentiation, Vascular Smooth Muscle, Kinase, Transferase, Atp-Binding, Phosphoprotein, Calmodulin-Binding, Nucleotide-Binding
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Rellos, A. C. W. Pike, F. H. Niesen, E. Salah, W. H. Lee, F. Von Delft, S. Knapp
Structure Of The Camkiidelta/Calmodulin Complex Reveals The Molecular Mechanism Of Camkii Kinase Activation.
Plos Biol. V. 8 426 2010
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Hetero Components
(3, 4)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: 4-(2-HYDROXYETHYL)-1-PIPERAZINEETH... (EPEa)
3a: [4-({4-[(5-CYCLOPROPYL-1H-PYRAZOL-... (GVDa)
3b: [4-({4-[(5-CYCLOPROPYL-1H-PYRAZOL-... (GVDb)
4a: PHOSPHATE ION (PO4a)
4b: PHOSPHATE ION (PO4b)
4c: PHOSPHATE ION (PO4c)
4d: PHOSPHATE ION (PO4d)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
EPE
1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
3
GVD
1
Ligand/Ion
[4-({4-[(5-CYCLOPROPYL-1H-PYRAZOL-3-YL)AMINO]QUINAZOLIN-2-YL}IMINO)CYCLOHEXA-2,5-DIEN-1-YL]ACETONITRILE
4
PO4
2
Ligand/Ion
PHOSPHATE ION
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Sites
(5, 5)
Info
All Sites
1: AC2 (SOFTWARE)
2: AC3 (SOFTWARE)
3: AC6 (SOFTWARE)
4: AC7 (SOFTWARE)
5: AC8 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC2
SOFTWARE
LEU A:20 , LYS A:22 , VAL A:28 , ALA A:41 , LYS A:43 , PHE A:90 , ASP A:91 , LEU A:92 , VAL A:93 , ASP A:157 , PO4 A:1311
BINDING SITE FOR RESIDUE GVD A1314
2
AC3
SOFTWARE
THR A:47 , HIS A:55 , SER A:81 , GLU A:82 , PHE A:85 , HIS A:86 , SER A:148 , LYS A:149 , HOH A:2072
BINDING SITE FOR RESIDUE PO4 A1310
3
AC6
SOFTWARE
LEU A:20 , GLY A:21 , GVD A:1314 , HOH A:2073
BINDING SITE FOR RESIDUE PO4 A1311
4
AC7
SOFTWARE
ARG A:75 , HIS A:77
BINDING SITE FOR RESIDUE CL A1312
5
AC8
SOFTWARE
TYR A:107 , SER A:109 , ALA A:111 , ASP A:112 , ARG A:275 , SER A:276 , MET A:281 , HOH A:2029
BINDING SITE FOR RESIDUE EPE A1313
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_040602 (D167E, chain A, )
View:
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_040602
D
167
E
KCC2D_HUMAN
Polymorphism
35367671
A
D
167
E
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: PROTEIN_KINASE_ATP (A:20-43)
2: PROTEIN_KINASE_ST (A:132-144)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PROTEIN_KINASE_ATP
PS00107
Protein kinases ATP-binding region signature.
KCC2D_HUMAN
20-43
1
A:20-43
-
2
PROTEIN_KINASE_ST
PS00108
Serine/Threonine protein kinases active-site signature.
KCC2D_HUMAN
132-144
1
A:132-144
-
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2vn9a_ (A:)
1b: SCOP_d2vn9b_ (B:)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Protein kinase-like (PK-like)
(2589)
Superfamily
:
Protein kinase-like (PK-like)
(2589)
Family
:
automated matches
(529)
Protein domain
:
automated matches
(529)
Human (Homo sapiens) [TaxId: 9606]
(438)
1a
d2vn9a_
A:
1b
d2vn9b_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2vn9A02 (A:93-309)
1b: CATH_2vn9B02 (B:93-309)
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)
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)
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)
Organisms
(
)
(
)
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)
1a
2vn9A02
A:93-309
1b
2vn9B02
B:93-309
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Pkinase_2vn9B01 (B:14-272)
1b: PFAM_Pkinase_2vn9B02 (B:14-272)
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)
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)
Clan
:
PKinase
(934)
Family
:
Pkinase
(680)
Homo sapiens (Human)
(521)
1a
Pkinase-2vn9B01
B:14-272
1b
Pkinase-2vn9B02
B:14-272
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Chain A
Asymmetric Unit 1
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Asym.Unit (106 KB)
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