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Asym. Unit
Info
Asym.Unit (170 KB)
Biol.Unit 1 (83 KB)
Biol.Unit 2 (84 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF JMJC DOMAIN OF HUMAN HISTONE DEMETHYLASE UTY IN COMPLEX WITH D-2-HYDROXYGLUTARATE
Authors
:
R. Nowak, T. Krojer, C. Johansson, C. Gileadi, K. Kupinska, F. Von Delf C. H. Arrowsmith, C. Bountra, A. Edwards, U. Oppermann
Date
:
08 Mar 16 (Deposition) - 16 Mar 16 (Release) - 16 Mar 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Oxidoreductase, Tca Intermediate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Nowak, T. Krojer, C. Johansson, C. Gileadi, K. Kupinska, F. Von Delft, C. H. Arrowsmith, C. Bountra, A. Edwards, U. Oppermann
Crystal Structure Of Jmjc Domain Of Human Histone Demethylase Uty In Complex With D-2- Hydroxyglutarate
To Be Published
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Hetero Components
(4, 34)
Info
All Hetero Components
1a: (2R)-2-HYDROXYPENTANEDIOIC ACID (2HGa)
1b: (2R)-2-HYDROXYPENTANEDIOIC ACID (2HGb)
2a: 1,2-ETHANEDIOL (EDOa)
2aa: 1,2-ETHANEDIOL (EDOaa)
2ab: 1,2-ETHANEDIOL (EDOab)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
2s: 1,2-ETHANEDIOL (EDOs)
2t: 1,2-ETHANEDIOL (EDOt)
2u: 1,2-ETHANEDIOL (EDOu)
2v: 1,2-ETHANEDIOL (EDOv)
2w: 1,2-ETHANEDIOL (EDOw)
2x: 1,2-ETHANEDIOL (EDOx)
2y: 1,2-ETHANEDIOL (EDOy)
2z: 1,2-ETHANEDIOL (EDOz)
3a: MANGANESE (II) ION (MNa)
3b: MANGANESE (II) ION (MNb)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2HG
2
Ligand/Ion
(2R)-2-HYDROXYPENTANEDIOIC ACID
2
EDO
28
Ligand/Ion
1,2-ETHANEDIOL
3
MN
2
Ligand/Ion
MANGANESE (II) ION
4
ZN
2
Ligand/Ion
ZINC ION
[
close Hetero Component info
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Sites
(34, 34)
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)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:1199 , CYS A:1202 , CYS A:1226 , CYS A:1229
BINDING SITE FOR RESIDUE ZN A4002
02
AC2
SOFTWARE
CYS B:1199 , CYS B:1202 , CYS B:1226 , CYS B:1229
BINDING SITE FOR RESIDUE ZN B4002
03
AC3
SOFTWARE
HIS B:1014 , GLU B:1016 , HIS B:1094 , 2HG B:2274 , HOH B:3137
BINDING SITE FOR RESIDUE MN B2273
04
AC4
SOFTWARE
HIS A:1014 , GLU A:1016 , HIS A:1094 , 2HG A:2267 , HOH A:3145
BINDING SITE FOR RESIDUE MN A2266
05
AC5
SOFTWARE
LYS A:1005 , THR A:1011 , HIS A:1014 , GLU A:1016 , SER A:1022 , ASN A:1024 , TRP A:1034 , HIS A:1094 , ALA A:1106 , MN A:2266 , EDO A:2278 , HOH A:3140 , HOH A:3145 , HOH A:3316
BINDING SITE FOR RESIDUE 2HG A2267
06
AC6
SOFTWARE
LYS B:1005 , THR B:1011 , HIS B:1014 , GLU B:1016 , SER B:1022 , ASN B:1024 , TRP B:1034 , HIS B:1094 , ALA B:1106 , MN B:2273 , EDO B:2282 , HOH B:3130 , HOH B:3131 , HOH B:3137
BINDING SITE FOR RESIDUE 2HG B2274
07
AC7
SOFTWARE
ILE B:888 , TRP B:889 , ARG B:890 , ASN B:1052 , HOH B:3308
BINDING SITE FOR RESIDUE EDO B2275
08
AC8
SOFTWARE
SER A:853 , THR A:854 , GLN A:907 , GLY A:1028 , PRO A:1029 , ASN A:1103 , EDO A:2269 , EDO A:2273 , HOH A:3039
BINDING SITE FOR RESIDUE EDO A2268
09
AC9
SOFTWARE
PRO A:1029 , TRP A:1101 , EDO A:2268 , EDO A:2275 , HOH A:3083
BINDING SITE FOR RESIDUE EDO A2269
10
BC1
SOFTWARE
ARG A:1077 , HOH A:3004 , ASN B:919 , GLU B:920
BINDING SITE FOR RESIDUE EDO A2270
11
BC2
SOFTWARE
HIS A:1188 , HIS A:1197 , TYR A:1222 , VAL A:1224
BINDING SITE FOR RESIDUE EDO A2271
12
BC3
SOFTWARE
GLY A:840 , ALA A:842 , GLY A:843 , PRO A:1082 , GLY A:1083 , ASP A:1084 , HOH A:3318
BINDING SITE FOR RESIDUE EDO A2272
13
BC4
SOFTWARE
LYS A:816 , VAL B:1044 , ASP B:1047 , PHE B:1048 , ALA B:1071 , HOH B:3309
BINDING SITE FOR RESIDUE EDO B2276
14
BC5
SOFTWARE
PHE B:911 , PRO B:1029 , TRP B:1101 , EDO B:2278 , HOH B:3085
BINDING SITE FOR RESIDUE EDO B2277
15
BC6
SOFTWARE
SER B:853 , THR B:854 , PRO B:1029 , ASN B:1103 , EDO B:2277 , EDO B:2286 , HOH B:3033
BINDING SITE FOR RESIDUE EDO B2278
16
BC7
SOFTWARE
GLY A:850 , ILE A:1027 , EDO A:2268 , HOH A:3319
BINDING SITE FOR RESIDUE EDO A2273
17
BC8
SOFTWARE
LEU B:971 , THR B:972 , ARG B:979 , VAL B:980 , VAL B:981
BINDING SITE FOR RESIDUE EDO B2279
18
BC9
SOFTWARE
HIS B:864 , ASP B:957 , ASP B:960 , LYS B:963 , HOH B:3046
BINDING SITE FOR RESIDUE EDO B2280
19
CC1
SOFTWARE
LYS B:1128 , SER B:1131 , CYS B:1202 , HOH B:3208
BINDING SITE FOR RESIDUE EDO B2281
20
CC2
SOFTWARE
GLY B:996 , GLN B:1001 , TYR B:1003 , GLU B:1016 , SER B:1022 , ALA B:1106 , TRP B:1107 , ASN B:1108 , 2HG B:2274 , HOH B:3129
BINDING SITE FOR RESIDUE EDO B2282
21
CC3
SOFTWARE
THR A:829 , CYS A:1021 , ASN A:1089 , PRO A:1111 , THR A:1113 , CYS A:1115
BINDING SITE FOR RESIDUE EDO A2274
22
CC4
SOFTWARE
PRO A:1029 , GLY A:1030 , GLY A:1100 , TRP A:1101 , EDO A:2269 , HOH A:3320
BINDING SITE FOR RESIDUE EDO A2275
23
CC5
SOFTWARE
ARG A:1081 , SER B:914 , GLU B:918
BINDING SITE FOR RESIDUE EDO B2283
24
CC6
SOFTWARE
PRO A:831 , GLU A:1039 , ASN A:1089 , ALA A:1090 , THR A:1092 , CYS A:1115 , LEU A:1119 , HOH A:3160 , HOH A:3161 , HOH A:3163
BINDING SITE FOR RESIDUE EDO A2276
25
CC7
SOFTWARE
GLU A:863 , HOH A:3046 , ASN B:1214 , GLU B:1215 , THR B:1218 , HOH B:3313
BINDING SITE FOR RESIDUE EDO B2284
26
CC8
SOFTWARE
HIS B:1225 , THR B:1233 , HOH B:3314
BINDING SITE FOR RESIDUE EDO B2285
27
CC9
SOFTWARE
SER B:853 , ILE B:1027 , GLY B:1028 , PRO B:1029 , EDO B:2278
BINDING SITE FOR RESIDUE EDO B2286
28
DC1
SOFTWARE
THR B:829 , CYS B:1021 , ASN B:1089 , PRO B:1111 , THR B:1113 , CYS B:1115 , GLN B:1116
BINDING SITE FOR RESIDUE EDO B2287
29
DC2
SOFTWARE
PRO B:1029 , GLY B:1030 , GLY B:1100 , TRP B:1101 , HOH B:3315
BINDING SITE FOR RESIDUE EDO B2288
30
DC3
SOFTWARE
GLN A:1170 , HIS A:1227 , ASP A:1228 , HOH A:3236 , HOH A:3321 , THR B:1259 , LEU B:1260
BINDING SITE FOR RESIDUE EDO A2277
31
DC4
SOFTWARE
GLY A:996 , GLN A:1001 , TYR A:1003 , ALA A:1106 , TRP A:1107 , ASN A:1108 , 2HG A:2267 , HOH A:3145
BINDING SITE FOR RESIDUE EDO A2278
32
DC5
SOFTWARE
HIS A:825 , ALA A:976 , PHE A:977 , SER A:982 , GLY A:984 , HOH A:3322
BINDING SITE FOR RESIDUE EDO A2279
33
DC6
SOFTWARE
LYS A:803 , TYR A:1041 , ASN A:1072
BINDING SITE FOR RESIDUE EDO A2280
34
DC7
SOFTWARE
ILE A:811 , PRO A:823 , LEU A:824 , HOH A:3021 , HOH A:3323
BINDING SITE FOR RESIDUE EDO A2281
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(0, 0)
Info
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Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Label:
Sorry, no Info available
[
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