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5A3W
Asym. Unit
Info
Asym.Unit (168 KB)
Biol.Unit 1 (162 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN PLU-1 (JARID1B) IN COMPLEX WITH PYRIDINE-2,6-DICARBOXYLIC ACID (PDCA)
Authors
:
V. Srikannathasan, C. Johansson, C. Gileadi, J. Kopec, C. Strain-Dame K. Kupinska, N. A. Burgess-Brown, F. Von Delft, C. H. Arrowsmith, C. B A. M. Edwards, U. Oppermann
Date
:
03 Jun 15 (Deposition) - 17 Jun 15 (Release) - 29 Jun 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Oxidoreductase, Lysine-Specific Demethylase 5B
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Johansson, S. Velupillai, A. Tumber, A. Szykowska, E. S. Hookway, R. P. Nowak, C. Strain-Damerell, C. Gileadi, M. Philpott, N. Burgess-Brown, N. Wu, J. Kopec, A. Nuzzi, H. Steuber, U. Egner, V. Badock, S. Munro, N. B. Lathangue, S. Westaway, J. Brown, N. Athanasou, R. Prinjha, P. E. Brennan, U. Oppermann
Structural Analysis Of Human Kdm5B Guides Histone Demethylase Inhibitor Development.
Nat. Chem. Biol. V. 12 539 2016
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Hetero Components
(7, 10)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
2a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
3a: MANGANESE (II) ION (MNa)
4a: SODIUM ION (NAa)
5a: PYRIDINE-2,4-DICARBOXYLIC ACID (PD2a)
6a: PHOSPHATE ION (PO4a)
7a: ZINC ION (ZNa)
7b: ZINC ION (ZNb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
EDO
3
Ligand/Ion
1,2-ETHANEDIOL
2
EPE
1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3
MN
1
Ligand/Ion
MANGANESE (II) ION
4
NA
1
Ligand/Ion
SODIUM ION
5
PD2
1
Ligand/Ion
PYRIDINE-2,4-DICARBOXYLIC ACID
6
PO4
1
Ligand/Ion
PHOSPHATE ION
7
ZN
2
Ligand/Ion
ZINC ION
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Sites
(10, 10)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:692 , CYS A:695 , CYS A:715 , HIS A:718
BINDING SITE FOR RESIDUE ZN A1754
02
AC2
SOFTWARE
CYS A:706 , CYS A:708 , CYS A:723 , CYS A:725
BINDING SITE FOR RESIDUE ZN A1755
03
AC3
SOFTWARE
LEU A:90 , ASN A:91 , LEU A:413 , THR A:416 , GLU A:419 , HOH A:2049
BINDING SITE FOR RESIDUE NA A1756
04
AC4
SOFTWARE
ARG A:98 , TYR A:425 , TYR A:488 , PHE A:496 , HIS A:499 , GLU A:501 , LYS A:517 , TRP A:519 , HIS A:587 , MN A:1758 , HOH A:2098 , HOH A:2108 , HOH A:2109 , HOH A:2113 , HOH A:2228
BINDING SITE FOR RESIDUE PD2 A1757
05
AC5
SOFTWARE
HIS A:499 , GLU A:501 , HIS A:587 , PD2 A:1757 , HOH A:2109
BINDING SITE FOR RESIDUE MN A1758
06
AC6
SOFTWARE
HIS A:622 , LYS A:694 , HIS A:718 , HOH A:2150
BINDING SITE FOR RESIDUE PO4 A1759
07
AC7
SOFTWARE
ILE A:500 , TRP A:504 , GLU A:531 , MET A:534 , LEU A:541 , PHE A:542 , LEU A:552 , VAL A:553 , TYR A:586 , HIS A:617 , TYR A:618 , LEU A:621 , ARG A:623 , HOH A:2102 , HOH A:2107 , HOH A:2129 , HOH A:2155 , HOH A:2229
BINDING SITE FOR RESIDUE EPE A1760
08
AC8
SOFTWARE
ASP A:688 , GLU A:689 , ARG A:690 , GLN A:691 , VAL A:693 , GLY A:711 , LEU A:712 , LEU A:713
BINDING SITE FOR RESIDUE EDO A1761
09
AC9
SOFTWARE
VAL A:674 , ILE A:675 , LEU A:732 , HOH A:2186 , HOH A:2190
BINDING SITE FOR RESIDUE EDO A1762
10
BC1
SOFTWARE
ALA A:386 , ASP A:387 , LYS A:390 , MET A:491 , CYS A:492 , GLU A:515 , GLY A:593 , PHE A:594
BINDING SITE FOR RESIDUE EDO A1763
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
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SCOP Domains
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CATH Domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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Asym.Unit (168 KB)
Header - Asym.Unit
Biol.Unit 1 (162 KB)
Header - Biol.Unit 1
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