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2RKU
Asym. Unit
Info
Asym.Unit (64 KB)
Biol.Unit 1 (57 KB)
Biol.Unit 2 (112 KB)
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(1)
Title
:
STRUCTURE OF PLK1 IN COMPLEX WITH BI2536
Authors
:
Y. -H. Ding, M. Kothe, D. Kohls, S. Low
Date
:
17 Oct 07 (Deposition) - 05 Feb 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Biol. Unit 2: A (2x)
Keywords
:
Structure Of Plk1, Selectivity Residues, Kinase, Polo-Like Kinase, Structure Based Drug Design, Atp-Binding, Nucleotide-Binding, Nucleus, Phosphorylation, Serine/Threonine-Protein Kinase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
M. Kothe, D. Kohls, S. Low, R. Coli, G. R. Rennie, F. Feru, C. Kuhn, Y. -H. Ding
Selectivity-Determining Residues In Plk1.
Chem. Biol. Drug Des. V. 70 540 2007
[
close entry info
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Hetero Components
(5, 7)
Info
All Hetero Components
1a: 4-{[(7R)-8-CYCLOPENTYL-7-ETHYL-5-M... (R78a)
2a: S,R MESO-TARTARIC ACID (SRTa)
2b: S,R MESO-TARTARIC ACID (SRTb)
3a: D(-)-TARTARIC ACID (TARa)
4a: L(+)-TARTARIC ACID (TLAa)
4b: L(+)-TARTARIC ACID (TLAb)
5a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
R78
1
Ligand/Ion
4-{[(7R)-8-CYCLOPENTYL-7-ETHYL-5-METHYL-6-OXO-5,6,7,8-TETRAHYDROPTERIDIN-2-YL]AMINO}-3-METHOXY-N-(1-METHYLPIPERIDIN-4-YL)BENZAMIDE
2
SRT
2
Ligand/Ion
S,R MESO-TARTARIC ACID
3
TAR
1
Ligand/Ion
D(-)-TARTARIC ACID
4
TLA
2
Ligand/Ion
L(+)-TARTARIC ACID
5
ZN
1
Ligand/Ion
ZINC ION
[
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:93 , CYS A:212 , CYS A:255 , TLA A:502
BINDING SITE FOR RESIDUE ZN A 501
2
AC2
SOFTWARE
ARG A:57 , PHE A:58 , LEU A:59 , LYS A:61 , GLU A:69 , VAL A:114 , LEU A:130 , GLU A:131 , LEU A:132 , CYS A:133 , ARG A:136 , PHE A:183 , HOH A:527 , HOH A:563 , HOH A:619
BINDING SITE FOR RESIDUE R78 A 500
3
AC3
SOFTWARE
LYS A:91 , HIS A:93 , LYS A:97 , CYS A:212 , SER A:254 , CYS A:255 , LEU A:256 , ZN A:501 , TLA A:504 , HOH A:608 , HOH A:677
BINDING SITE FOR RESIDUE TLA A 502
4
AC4
SOFTWARE
PHE A:64 , LYS A:91 , GLN A:94 , LYS A:97 , TLA A:502 , HOH A:552 , HOH A:608 , HOH A:733
BINDING SITE FOR RESIDUE TLA A 504
5
AC5
SOFTWARE
ASN A:266 , TYR A:268 , SER A:269 , ILE A:270 , GLN A:283
BINDING SITE FOR RESIDUE SRT A 505
6
AC6
SOFTWARE
ARG A:135 , GLU A:140 , LEU A:141 , LEU A:319 , HOH A:592 , HOH A:648 , HOH A:698
BINDING SITE FOR RESIDUE SRT A 507
7
AC7
SOFTWARE
LEU A:139 , LYS A:178 , LEU A:179 , GLY A:180 , ASN A:216 , HOH A:743 , HOH A:783
BINDING SITE FOR RESIDUE TAR A 503
[
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_041019 (L261F, chain A, )
2: VAR_051659 (N297D, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_041019
L
261
F
PLK1_HUMAN
Polymorphism
35056440
A
L
261
F
2
UniProt
VAR_051659
N
297
D
PLK1_HUMAN
Polymorphism
16972799
A
N
297
D
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:59-82)
2: PROTEIN_KINASE_ST (A:172-184)
;
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.
PLK1_HUMAN
59-82
1
A:59-82
2
PROTEIN_KINASE_ST
PS00108
Serine/Threonine protein kinases active-site signature.
PLK1_HUMAN
172-184
1
A:172-184
[
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Exons
(5, 5)
Info
All Exons
Exon 1.1a (A:37-136)
Exon 1.2b (A:137-193)
Exon 1.3b (A:193-241)
Exon 1.4 (A:241-272)
Exon 1.5 (A:273-330)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2b
3: Boundary 1.2b/1.3b
4: Boundary 1.3b/1.4
5: Boundary 1.4/1.5
6: Boundary 1.5/1.6
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
ENST00000300093
1a
ENSE00001107240
chr16:
23690143-23690661
519
PLK1_HUMAN
1-136
136
1
A:37-136
100
1.2b
ENST00000300093
2b
ENSE00001107217
chr16:
23691405-23691573
169
PLK1_HUMAN
137-193
57
1
A:137-193
57
1.3b
ENST00000300093
3b
ENSE00001107239
chr16:
23692235-23692379
145
PLK1_HUMAN
193-241
49
1
A:193-241
49
1.4
ENST00000300093
4
ENSE00001107237
chr16:
23693385-23693478
94
PLK1_HUMAN
241-272
32
1
A:241-272
32
1.5
ENST00000300093
5
ENSE00001107229
chr16:
23695191-23695410
220
PLK1_HUMAN
273-346
74
1
A:273-330
58
1.6
ENST00000300093
6
ENSE00001107234
chr16:
23698790-23698945
156
PLK1_HUMAN
346-398
53
0
-
-
1.7
ENST00000300093
7
ENSE00001107238
chr16:
23699989-23700066
78
PLK1_HUMAN
398-424
27
0
-
-
1.8
ENST00000300093
8
ENSE00001107241
chr16:
23700559-23700713
155
PLK1_HUMAN
424-475
52
0
-
-
1.9
ENST00000300093
9
ENSE00001107222
chr16:
23700815-23700997
183
PLK1_HUMAN
476-536
61
0
-
-
1.10a
ENST00000300093
10a
ENSE00001107226
chr16:
23701181-23701688
508
PLK1_HUMAN
537-603
67
0
-
-
[
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]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2rkua_ (A:)
View:
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Classes
(
)
(
)
Folds
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)
(
)
Superfamilies
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)
(
)
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(
)
(
)
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
:
automated matches
(529)
Protein domain
:
automated matches
(529)
Human (Homo sapiens) [TaxId: 9606]
(438)
1a
d2rkua_
A:
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_2rkuA01 (A:48-136)
2a: CATH_2rkuA02 (A:137-309)
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
2rkuA01
A:48-136
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)
2a
2rkuA02
A:137-309
[
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Pkinase_2rkuA01 (A:53-305)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
PKinase
(934)
Family
:
Pkinase
(680)
Homo sapiens (Human)
(521)
1a
Pkinase-2rkuA01
A:53-305
[
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]
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Chain A
Asymmetric Unit 1
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