PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
4A4L
Asym. Unit
Info
Asym.Unit (56 KB)
Biol.Unit 1 (100 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF POLO-LIKE KINASE 1 IN COMPLEX WITH A 5-(2-AMINO-PYRIMIDIN-4-YL)-1H-PYRROLE INHIBITOR
Authors
:
J. A. Bertrand, R. T. Bossi
Date
:
17 Oct 11 (Deposition) - 11 Jan 12 (Release) - 11 Jan 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.35
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Keywords
:
Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Caruso, B. Valsasina, D. Ballinari, J. A. Bertrand, M. G. Brasca, M. Caldarelli, P. Cappella, F. Fiorentini, L. M. Gianellini, A. Scolaro, I. Beria
5-(2-Amino-Pyrimidin-4-Yl)-1H-Pyrrole And 2-(2-Amino- Pyrimidin-4-Yl)-1, 5, 6, 7-Tetrahydro-Pyrrolo[3, 2-C]Pyridin-4- One Derivatives As New Classes Of Selective And Orally Available Polo-Like Kinase 1 Inhibitors.
Bioorg. Med. Chem. Lett. V. 22 96 2012
[
close entry info
]
Hetero Components
(3, 3)
Info
All Hetero Components
1a: 1-METHYL-5-(2-{[5-(4-METHYLPIPERAZ... (939a)
2a: L(+)-TARTARIC ACID (TLAa)
3a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
939
1
Ligand/Ion
1-METHYL-5-(2-{[5-(4-METHYLPIPERAZIN-1-YL)-2-(TRIFLUOROMETHOXY)PHENYL]AMINO}PYRIMIDIN-4-YL)-1H-PYRROLE-3-CARBOXAMIDE
2
TLA
1
Ligand/Ion
L(+)-TARTARIC ACID
3
ZN
1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:93 , CYS A:212 , CYS A:255 , TLA A:1330
BINDING SITE FOR RESIDUE ZN A1329
2
AC2
SOFTWARE
LYS A:91 , HIS A:93 , GLN A:94 , LYS A:97 , CYS A:212 , CYS A:255 , LEU A:256 , ZN A:1329
BINDING SITE FOR RESIDUE TLA A1330
3
AC3
SOFTWARE
ARG A:57 , LEU A:59 , CYS A:67 , ALA A:80 , LYS A:82 , GLU A:131 , LEU A:132 , CYS A:133 , ARG A:134 , ARG A:136 , SER A:137 , GLU A:140 , GLY A:180 , PHE A:183 , ASP A:194 , HOH A:2035
BINDING SITE FOR RESIDUE 939 A1331
[
close Site info
]
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)
[
close SNP/Variant info
]
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
[
close PROSITE info
]
Exons
(5, 5)
Info
All Exons
Exon 1.1a (A:39-136)
Exon 1.2b (A:137-193)
Exon 1.3b (A:193-241)
Exon 1.4 (A:241-272)
Exon 1.5 (A:273-329)
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:39-136
98
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:273-329
57
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
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d4a4la_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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
d4a4la_
A:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (56 KB)
Header - Asym.Unit
Biol.Unit 1 (100 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
4A4L
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help