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5FUP
Asym. Unit
Info
Asym.Unit (96 KB)
Biol.Unit 1 (90 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN JARID1B IN COMPLEX WITH 2-OXOGLUTARATE.
Authors
:
R. Nowak, V. Srikannathasan, C. Johansson, C. Gileadi, K. Kupinska, C. Strain- Damerell, A. Szykowska, R. Talon, F. Von Delft, N. A. Burgess-Brown, C. H. Arrowsmith, C. Bountra, A. M. Edwards, U. Op
Date
:
28 Jan 16 (Deposition) - 23 Mar 16 (Release) - 29 Jun 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Oxidoreductase, Jarid1B, Plu1
(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
(6, 16)
Info
All Hetero Components
1a: 2-OXOGLUTARIC ACID (AKGa)
2a: CHLORIDE ION (CLa)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
4a: 4-(2-HYDROXYETHYL)-1-PIPERAZINEETH... (EPEa)
5a: MANGANESE (II) ION (MNa)
5b: MANGANESE (II) ION (MNb)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
AKG
1
Ligand/Ion
2-OXOGLUTARIC ACID
2
CL
1
Ligand/Ion
CHLORIDE ION
3
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
4
EPE
1
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
5
MN
2
Ligand/Ion
MANGANESE (II) ION
6
ZN
2
Ligand/Ion
ZINC ION
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Sites
(16, 16)
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)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (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 A1755
02
AC2
SOFTWARE
CYS A:706 , CYS A:708 , CYS A:723 , CYS A:725
BINDING SITE FOR RESIDUE ZN A1756
03
AC3
SOFTWARE
HIS A:499 , GLU A:501 , HIS A:587 , AKG A:1764 , HOH A:2252
BINDING SITE FOR RESIDUE MN A1757
04
AC4
SOFTWARE
HOH A:2456
BINDING SITE FOR RESIDUE MN A1758
05
AC5
SOFTWARE
ILE A:500 , TRP A:504 , LEU A:541 , LEU A:552 , VAL A:553 , TYR A:586 , HIS A:617 , TYR A:618 , LEU A:621 , ARG A:623 , HOH A:2250 , HOH A:2256 , HOH A:2289 , HOH A:2318 , HOH A:2360 , HOH A:2482
BINDING SITE FOR RESIDUE EPE A1759
06
AC6
SOFTWARE
LEU A:90 , ASN A:91 , LEU A:413 , THR A:416 , GLU A:419 , HOH A:2111
BINDING SITE FOR RESIDUE CL A1762
07
AC7
SOFTWARE
ASP A:630 , CYS A:699 , PHE A:700 , MET A:701 , SER A:702 , HOH A:2369
BINDING SITE FOR RESIDUE EDO A2760
08
AC8
SOFTWARE
TYR A:734 , HOH A:2468 , HOH A:2485
BINDING SITE FOR RESIDUE EDO A2762
09
AC9
SOFTWARE
ARG A:612 , ASP A:630 , MET A:658 , ASP A:661 , GLU A:662 , HOH A:2455
BINDING SITE FOR RESIDUE EDO A2763
10
BC1
SOFTWARE
PRO A:30 , VAL A:568
BINDING SITE FOR RESIDUE EDO A2764
11
BC2
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 , HOH A:2488
BINDING SITE FOR RESIDUE EDO A2765
12
BC3
SOFTWARE
GLY A:524 , TYR A:525 , ARG A:584 , HOH A:2277 , HOH A:2489
BINDING SITE FOR RESIDUE EDO A2766
13
BC4
SOFTWARE
ARG A:670 , VAL A:674 , ILE A:675 , HOH A:2179 , HOH A:2397
BINDING SITE FOR RESIDUE EDO A2767
14
BC5
SOFTWARE
TRP A:70 , GLU A:453 , SER A:457 , HOH A:2039
BINDING SITE FOR RESIDUE EDO A2768
15
BC6
SOFTWARE
TYR A:488 , GLU A:501 , ALA A:599 , ASN A:601 , AKG A:1764 , HOH A:2234 , HOH A:2252 , HOH A:2490
BINDING SITE FOR RESIDUE EDO A2769
16
BC7
SOFTWARE
TYR A:425 , TYR A:488 , PHE A:496 , HIS A:499 , GLU A:501 , SER A:507 , ASN A:509 , LYS A:517 , TRP A:519 , HIS A:587 , ALA A:599 , MN A:1757 , HOH A:2252 , HOH A:2483 , EDO A:2769
BINDING SITE FOR RESIDUE AKG A1764
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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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CATH Domains
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Chain A
Asymmetric Unit 1
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