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5FZE
Asym. Unit
Info
Asym.Unit (93 KB)
Biol.Unit 1 (85 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN JARID1B IN COMPLEX WITH MC3960
Authors
:
R. Nowak, T. Krojer, C. Johansson, C. Gileadi, K. Kupinska, C. Strain-D A. Szykowska, F. Von Delft, N. A. Burgess-Brown, C. H. Arrowsmith, C. A. M. Edwards, D. Rotili, A. Mai, U. Oppermann
Date
:
14 Mar 16 (Deposition) - 29 Mar 17 (Release) - 29 Mar 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.02
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Oxidoreductase, Jarid1B, Plu1
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Nowak, T. Krojer, C. Johansson, C. Gileadi, K. Kupinska, C. Strain-Damerell, A. Szykowska, F. Von Delft, N. A. Burgess-Brown C. H. Arrowsmith, C. Bountra, A. M. Edwards, D. Rotili, A. Mai, U. Oppermann
Crystal Structure Of The Catalytic Domain Of Human Jarid1B In Complex With Mc3960
To Be Published
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Hetero Components
(7, 22)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: DIMETHYL SULFOXIDE (DMSa)
2b: DIMETHYL SULFOXIDE (DMSb)
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)
3j: 1,2-ETHANEDIOL (EDOj)
3k: 1,2-ETHANEDIOL (EDOk)
3l: 1,2-ETHANEDIOL (EDOl)
3m: 1,2-ETHANEDIOL (EDOm)
4a: [(6-OXO-4-PHENYL-1,6-DIHYDROPYRIMI... (H0Xa)
5a: MANGANESE (II) ION (MNa)
5b: MANGANESE (II) ION (MNb)
6a: PHOSPHATE ION (PO4a)
7a: ZINC ION (ZNa)
7b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
1
Ligand/Ion
CHLORIDE ION
2
DMS
2
Ligand/Ion
DIMETHYL SULFOXIDE
3
EDO
13
Ligand/Ion
1,2-ETHANEDIOL
4
H0X
1
Ligand/Ion
[(6-OXO-4-PHENYL-1,6-DIHYDROPYRIMIDIN-2-YL)SULFANYL]ACETONITRILE
5
MN
2
Ligand/Ion
MANGANESE (II) ION
6
PO4
1
Ligand/Ion
PHOSPHATE ION
7
ZN
2
Ligand/Ion
ZINC ION
[
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Sites
(22, 22)
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)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
View:
Select:
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 A 1755
02
AC2
SOFTWARE
CYS A:706 , CYS A:708 , CYS A:723 , CYS A:725
BINDING SITE FOR RESIDUE ZN A 1756
03
AC3
SOFTWARE
ARG A:98 , TYR A:488 , PHE A:496 , HIS A:499 , ASN A:509 , LYS A:517 , HIS A:587 , ASN A:591 , MN A:1758 , DMS A:1774 , HOH A:2126 , HOH A:2132
BINDING SITE FOR RESIDUE H0X A 1757
04
AC4
SOFTWARE
HIS A:499 , GLU A:501 , HIS A:587 , H0X A:1757 , HOH A:2132 , HOH A:2138
BINDING SITE FOR RESIDUE MN A 1758
05
AC5
SOFTWARE
LYS A:731 , ARG A:733 , HOH A:2223
BINDING SITE FOR RESIDUE MN A 1759
06
AC6
SOFTWARE
LEU A:90 , ASN A:91 , LEU A:413 , THR A:416 , GLU A:419
BINDING SITE FOR RESIDUE CL A 1760
07
AC7
SOFTWARE
ASP A:630 , CYS A:699 , PHE A:700 , MET A:701 , SER A:702 , HOH A:2192
BINDING SITE FOR RESIDUE EDO A 1761
08
AC8
SOFTWARE
PHE A:83 , GLY A:426 , ALA A:427 , ASP A:428 , LEU A:487 , VAL A:489 , HOH A:2097
BINDING SITE FOR RESIDUE EDO A 1762
09
AC9
SOFTWARE
ARG A:666 , LEU A:732 , THR A:737 , HOH A:2212 , HOH A:2256
BINDING SITE FOR RESIDUE EDO A 1763
10
BC1
SOFTWARE
ARG A:612 , ASP A:630 , MET A:658 , GLU A:662
BINDING SITE FOR RESIDUE EDO A 1764
11
BC2
SOFTWARE
PRO A:30 , VAL A:568
BINDING SITE FOR RESIDUE EDO A 1765
12
BC3
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 A 1766
13
BC4
SOFTWARE
GLY A:524 , TYR A:525 , ARG A:584 , HOH A:2257
BINDING SITE FOR RESIDUE EDO A 1767
14
BC5
SOFTWARE
ARG A:670 , VAL A:674 , ILE A:675 , HOH A:2094 , HOH A:2211
BINDING SITE FOR RESIDUE EDO A 1768
15
BC6
SOFTWARE
TRP A:504 , HIS A:617 , TYR A:618 , ARG A:623
BINDING SITE FOR RESIDUE EDO A 1769
16
BC7
SOFTWARE
GLU A:683 , LEU A:684 , LEU A:685 , GLU A:689 , HOH A:2230
BINDING SITE FOR RESIDUE EDO A 1770
17
BC8
SOFTWARE
GLU A:678 , ARG A:679 , MET A:680 , ASP A:681 , GLU A:683 , LEU A:684 , ARG A:733
BINDING SITE FOR RESIDUE EDO A 1771
18
BC9
SOFTWARE
GLU A:631 , LYS A:635 , GLU A:683 , TYR A:736
BINDING SITE FOR RESIDUE EDO A 1772
19
CC1
SOFTWARE
VAL A:99 , LYS A:100
BINDING SITE FOR RESIDUE EDO A 1773
20
CC2
SOFTWARE
GLN A:88 , GLN A:96 , THR A:97 , TYR A:425 , SER A:495 , PHE A:496 , CYS A:497 , H0X A:1757 , HOH A:2129
BINDING SITE FOR RESIDUE DMS A 1774
21
CC3
SOFTWARE
TRP A:486 , TYR A:488 , SER A:507 , ALA A:599 , VAL A:600 , ASN A:601
BINDING SITE FOR RESIDUE DMS A 1775
22
CC4
SOFTWARE
HIS A:622 , LYS A:694 , HIS A:718 , HOH A:2179 , HOH A:2182 , HOH A:2258
BINDING SITE FOR RESIDUE PO4 A 1776
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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Sorry, no Info available
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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Protein & NOT Site
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Chain A
Asymmetric Unit 1
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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
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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") .
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