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4CQF
Asym. Unit
Info
Asym.Unit (556 KB)
Biol.Unit 1 (139 KB)
Biol.Unit 2 (142 KB)
Biol.Unit 3 (145 KB)
Biol.Unit 4 (139 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI HDAC8 COMPLEXED WITH A MERCAPTOACETAMIDE INHIBITOR
Authors
:
M. Marek, C. Romier
Date
:
14 Feb 14 (Deposition) - 02 Apr 14 (Release) - 08 Oct 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Hydrolase, Structural Protein, Eukaryotes, Platyhelminths, Epigenetics, Histone Deacetylases, Inhibition
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. A. Stolfa, M. Marek, J. Lancelot, A. T. Hauser, A. Walter, E. Leproult, J. Melesina, T. Rumpf, J. M. Wurtz, J. Cavarelli, W. Sippl R. J. Pierce, C. Romier, M. Jung
Molecular Basis For The Anti-Parasitic Activity Of A Mercaptoacetamide Derivative That Inhibits Histone Deacetylase 8 (Hdac8) From The Human Pathogen Schistosoma Mansoni
J. Mol. Biol. V. 426 3442 2014
[
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Hetero Components
(5, 34)
Info
All Hetero Components
1a: 6-(2-MERCAPTOACETYLAMINO)-N-PHENYL... (9Z8a)
1b: 6-(2-MERCAPTOACETYLAMINO)-N-PHENYL... (9Z8b)
1c: 6-(2-MERCAPTOACETYLAMINO)-N-PHENYL... (9Z8c)
1d: 6-(2-MERCAPTOACETYLAMINO)-N-PHENYL... (9Z8d)
2a: DIMETHYLFORMAMIDE (DMFa)
2b: DIMETHYLFORMAMIDE (DMFb)
2c: DIMETHYLFORMAMIDE (DMFc)
2d: DIMETHYLFORMAMIDE (DMFd)
2e: DIMETHYLFORMAMIDE (DMFe)
2f: DIMETHYLFORMAMIDE (DMFf)
2g: DIMETHYLFORMAMIDE (DMFg)
2h: DIMETHYLFORMAMIDE (DMFh)
2i: DIMETHYLFORMAMIDE (DMFi)
2j: DIMETHYLFORMAMIDE (DMFj)
2k: DIMETHYLFORMAMIDE (DMFk)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
4a: POTASSIUM ION (Ka)
4b: POTASSIUM ION (Kb)
4c: POTASSIUM ION (Kc)
4d: POTASSIUM ION (Kd)
4e: POTASSIUM ION (Ke)
4f: POTASSIUM ION (Kf)
4g: POTASSIUM ION (Kg)
4h: POTASSIUM ION (Kh)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
9Z8
4
Ligand/Ion
6-(2-MERCAPTOACETYLAMINO)-N-PHENYLHEXANAMIDE
2
DMF
11
Ligand/Ion
DIMETHYLFORMAMIDE
3
GOL
7
Ligand/Ion
GLYCEROL
4
K
8
Ligand/Ion
POTASSIUM ION
5
ZN
4
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
ASP A:186 , HIS A:188 , ASP A:285 , 9Z8 A:700
BINDING SITE FOR RESIDUE ZN A 500
02
AC2
SOFTWARE
PHE A:197 , SER A:200 , VAL A:203 , SER A:243 , HOH A:2067
BINDING SITE FOR RESIDUE K A 600
03
AC3
SOFTWARE
ASP A:184 , ASP A:186 , HIS A:188 , SER A:207 , VAL A:208
BINDING SITE FOR RESIDUE K A 601
04
AC4
SOFTWARE
TYR A:99 , ASP A:100 , HIS A:141 , HIS A:142 , GLY A:150 , PHE A:151 , ASP A:186 , HIS A:188 , PHE A:216 , ASP A:285 , TYR A:341 , ZN A:500
BINDING SITE FOR RESIDUE 9Z8 A 700
05
AC5
SOFTWARE
SER A:18 , PRO A:19 , LYS A:20 , ASP A:100 , PHE A:104 , TYR A:110 , PHE A:151 , TYR A:153
BINDING SITE FOR RESIDUE DMF A 800
06
AC6
SOFTWARE
ARG A:352 , GLU A:359 , MET A:366 , ILE A:368
BINDING SITE FOR RESIDUE DMF A 801
07
AC7
SOFTWARE
ASP B:186 , HIS B:188 , ASP B:285 , 9Z8 B:700
BINDING SITE FOR RESIDUE ZN B 500
08
AC8
SOFTWARE
PHE B:197 , SER B:200 , VAL B:203 , SER B:243 , HOH B:2049
BINDING SITE FOR RESIDUE K B 600
09
AC9
SOFTWARE
ASP B:184 , ASP B:186 , HIS B:188 , SER B:207 , VAL B:208
BINDING SITE FOR RESIDUE K B 601
10
BC1
SOFTWARE
TYR B:99 , ASP B:100 , HIS B:141 , HIS B:142 , GLY B:150 , PHE B:151 , ASP B:186 , HIS B:188 , PHE B:216 , ASP B:285 , GLY B:339 , TYR B:341 , ZN B:500
BINDING SITE FOR RESIDUE 9Z8 B 700
11
BC2
SOFTWARE
SER B:18 , PRO B:19 , LYS B:20 , PHE B:21 , ASP B:100 , PHE B:104 , TYR B:110 , PHE B:151 , TYR B:153
BINDING SITE FOR RESIDUE DMF B 800
12
BC3
SOFTWARE
TYR B:7 , ASP B:30 , ILE B:38 , HOH B:2018
BINDING SITE FOR RESIDUE DMF B 801
13
BC4
SOFTWARE
ASP A:93 , SER A:94 , ARG B:43 , HOH B:2016
BINDING SITE FOR RESIDUE DMF B 802
14
BC5
SOFTWARE
ALA B:58 , ALA B:61 , LEU B:119 , LEU B:159 , HIS B:162 , ARG B:163 , HOH B:2019 , HOH B:2043
BINDING SITE FOR RESIDUE GOL B 901
15
BC6
SOFTWARE
HIS B:189 , GLU B:194 , GLY B:220 , THR B:221 , ILE B:232 , PHE B:233 , LEU B:234 , ASN B:246 , HOH B:2059
BINDING SITE FOR RESIDUE GOL B 902
16
BC7
SOFTWARE
ASP C:186 , HIS C:188 , ASP C:285 , 9Z8 C:700
BINDING SITE FOR RESIDUE ZN C 500
17
BC8
SOFTWARE
ASP C:184 , ASP C:186 , HIS C:188 , SER C:207 , VAL C:208
BINDING SITE FOR RESIDUE K C 600
18
BC9
SOFTWARE
PHE C:197 , SER C:200 , VAL C:203 , SER C:243 , HOH C:2065
BINDING SITE FOR RESIDUE K C 601
19
CC1
SOFTWARE
TYR C:99 , ASP C:100 , HIS C:141 , HIS C:142 , GLY C:150 , PHE C:151 , ASP C:186 , HIS C:188 , PHE C:216 , TYR C:341 , ZN C:500 , HOH C:2044 , HOH C:2102
BINDING SITE FOR RESIDUE 9Z8 C 700
20
CC2
SOFTWARE
SER C:18 , PRO C:19 , LYS C:20 , PHE C:21 , ASP C:100 , PHE C:104 , TYR C:110 , PHE C:151 , TYR C:153
BINDING SITE FOR RESIDUE DMF C 800
21
CC3
SOFTWARE
TYR C:7 , MET C:29 , ASP C:30 , ASN C:33 , ILE C:38
BINDING SITE FOR RESIDUE DMF C 801
22
CC4
SOFTWARE
ARG C:43 , HOH C:2022 , ASP D:93 , SER D:94 , SER D:96
BINDING SITE FOR RESIDUE DMF C 802
23
CC5
SOFTWARE
GLU C:131 , LYS C:330 , VAL C:331 , VAL C:361
BINDING SITE FOR RESIDUE DMF C 803
24
CC6
SOFTWARE
CYS C:15 , PHE C:21 , GLY C:22 , ARG C:24 , TYR C:25 , TYR C:110 , TRP C:136 , TRP C:140 , HOH C:2008
BINDING SITE FOR RESIDUE GOL C 900
25
CC7
SOFTWARE
HIS C:189 , GLU C:194 , THR C:219 , GLY C:220 , THR C:221 , PHE C:233 , LEU C:234 , HOH C:2076
BINDING SITE FOR RESIDUE GOL C 901
26
CC8
SOFTWARE
TYR C:301 , ARG C:352 , MET C:366 , THR C:367 , ILE C:368
BINDING SITE FOR RESIDUE GOL C 902
27
CC9
SOFTWARE
ASP D:186 , HIS D:188 , ASP D:285 , 9Z8 D:700
BINDING SITE FOR RESIDUE ZN D 500
28
DC1
SOFTWARE
PHE D:197 , SER D:200 , VAL D:203 , SER D:243 , HOH D:2046
BINDING SITE FOR RESIDUE K D 600
29
DC2
SOFTWARE
ASP D:184 , ASP D:186 , HIS D:188 , SER D:207 , VAL D:208
BINDING SITE FOR RESIDUE K D 601
30
DC3
SOFTWARE
TYR D:99 , ASP D:100 , HIS D:141 , HIS D:142 , GLY D:150 , PHE D:151 , ASP D:186 , HIS D:188 , PHE D:216 , TYR D:341 , ZN D:500
BINDING SITE FOR RESIDUE 9Z8 D 700
31
DC4
SOFTWARE
SER D:18 , PRO D:19 , LYS D:20 , PHE D:21 , ASP D:100 , PHE D:104 , TYR D:110 , PHE D:151 , TYR D:153
BINDING SITE FOR RESIDUE DMF D 800
32
DC5
SOFTWARE
GLU D:131 , VAL D:132 , LYS D:330 , VAL D:331 , VAL D:361
BINDING SITE FOR RESIDUE DMF D 801
33
DC6
SOFTWARE
HIS D:189 , GLU D:194 , THR D:219 , GLY D:220 , THR D:221 , ASN D:223 , ILE D:232 , PHE D:233 , LEU D:234 , ASN D:246
BINDING SITE FOR RESIDUE GOL D 900
34
DC7
SOFTWARE
PRO C:291 , HIS C:292 , SER D:51 , ARG D:54
BINDING SITE FOR RESIDUE GOL D 901
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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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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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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