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4BVG
Biol. Unit 1
Info
Asym.Unit (56 KB)
Biol.Unit 1 (48 KB)
Biol.Unit 2 (5 KB)
Biol.Unit 3 (50 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN SIRT3 IN COMPLEX WITH NATIVE ALKYLIMIDATE FORMED FROM ACETYL-LYSINE ACS2-PEPTIDE CRYSTALLIZED IN PRESENCE OF THE INHIBITOR EX-527
Authors
:
G. T. T. Nguyen, M. Gertz, M. Weyand, C. Steegborn
Date
:
25 Jun 13 (Deposition) - 17 Jul 13 (Release) - 07 Aug 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (1x)
Keywords
:
Hydrolase-Ligase Complex, Nad-Dependent Deacetylase, Native Intermediate
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
M. Gertz, F. Fischer, G. T. T. Nguyen, M. Lakshminarasimhan, M. Schutkowski, M. Weyand, C. Steegborn
Ex-527 Inhibits Sirtuins By Exploiting Their Unique Nad+-Dependent Deacetylation Mechanism
Proc. Natl. Acad. Sci. Usa V. 110 E2772 2013
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Hetero Components
(4, 13)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
3a: 2'-O-ACETYL ADENOSINE-5-DIPHOSPHOR... (OADa)
4a: DI(HYDROXYETHYL)ETHER (PEGa)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
6a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
7
Ligand/Ion
1,2-ETHANEDIOL
2
GOL
3
Ligand/Ion
GLYCEROL
3
OAD
-1
Ligand/Ion
2'-O-ACETYL ADENOSINE-5-DIPHOSPHORIBOSE
4
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
5
SO4
2
Ligand/Ion
SULFATE ION
6
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(15, 15)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:145 , ALA A:146 , GLY A:147 , THR A:150 , ASP A:156 , PHE A:157 , ARG A:158 , TYR A:165 , PHE A:180 , GLN A:228 , HIS A:248 , VAL A:292 , GLY A:319 , THR A:320 , SER A:321 , VAL A:324 , ASN A:344 , ARG A:345 , ASP A:346 , GLY A:364 , ASP A:365 , VAL A:366 , PEG A:1408 , HOH A:2007 , HOH A:2019 , LYS B:0
BINDING SITE FOR RESIDUE OAD B1000
02
AC2
SOFTWARE
GLU A:181 , VAL A:258 , CYS A:259 , GLN A:260 , MET B:2
BINDING SITE FOR RESIDUE EDO A1396
03
AC3
SOFTWARE
TYR A:200 , PRO A:201 , PHE A:251 , GLY A:265 , ARG A:269
BINDING SITE FOR RESIDUE EDO A1397
04
AC4
SOFTWARE
HIS A:187
BINDING SITE FOR RESIDUE EDO A1398
05
AC5
SOFTWARE
ASN A:229 , ILE A:230 , GLY A:232 , GLU A:246 , GLY A:249 , THR A:250 , PHE A:251
BINDING SITE FOR RESIDUE EDO A1399
06
AC6
SOFTWARE
LYS A:190 , VAL A:277 , ARG A:279 , ARG A:384
BINDING SITE FOR RESIDUE GOL A1400
07
AC7
SOFTWARE
ALA A:146 , SER A:149 , ILE A:154 , PHE A:157 , ASN A:229 , ILE A:230 , ASP A:231 , HOH A:2019 , HOH A:2053
BINDING SITE FOR RESIDUE GOL A1401
08
AC8
SOFTWARE
LYS A:205 , THR A:391 , HOH A:2054
BINDING SITE FOR RESIDUE GOL A1402
09
AC9
SOFTWARE
SER A:152 , ASN A:203 , TYR A:204 , LYS A:205
BINDING SITE FOR RESIDUE EDO A1403
10
BC1
SOFTWARE
GLN A:138 , GLY A:220 , LEU A:221 , LEU A:222 , LYS A:243
BINDING SITE FOR RESIDUE EDO A1404
11
BC2
SOFTWARE
ARG A:276 , GLY A:364 , ASP A:365 , HIS A:368
BINDING SITE FOR RESIDUE SO4 A1405
12
BC3
SOFTWARE
ARG A:224 , SER A:242 , ARG A:301
BINDING SITE FOR RESIDUE SO4 A1406
13
BC4
SOFTWARE
CYS A:283 , ARG A:384 , GLN A:388 , HOH A:2056
BINDING SITE FOR RESIDUE EDO A1407
14
BC5
SOFTWARE
ARG A:158 , SER A:159 , PRO A:160 , ARG A:345 , ASP A:346 , OAD B:1000
BINDING SITE FOR RESIDUE PEG A1408
15
BC6
SOFTWARE
CYS A:256 , CYS A:259 , CYS A:280 , CYS A:283
BINDING SITE FOR RESIDUE ZN A1409
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_051978 (V208I, chain A, )
2: VAR_051979 (G369S, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051978
V
208
I
SIR3_HUMAN
Polymorphism
11246020
A
V
208
I
2
UniProt
VAR_051979
G
369
S
SIR3_HUMAN
Polymorphism
3020901
A
G
369
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: SIRTUIN (A:126-382)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SIRTUIN
PS50305
Sirtuin catalytic domain profile.
SIR3_HUMAN
126-382
1
A:126-382
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
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Sorry, no Info available
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CATH Domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
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Chain A
Asymmetric Unit 1
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Asym.Unit (56 KB)
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Biol.Unit 1 (48 KB)
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Header - Biol.Unit 2
Biol.Unit 3 (50 KB)
Header - Biol.Unit 3
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