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3PKI
Biol. Unit 7
Info
Asym.Unit (300 KB)
Biol.Unit 1 (55 KB)
Biol.Unit 2 (54 KB)
Biol.Unit 3 (54 KB)
Biol.Unit 4 (54 KB)
Biol.Unit 5 (53 KB)
Biol.Unit 6 (53 KB)
Biol.Unit 7 (149 KB)
Biol.Unit 8 (146 KB)
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Title
:
HUMAN SIRT6 CRYSTAL STRUCTURE IN COMPLEX WITH ADP RIBOSE
Authors
:
P. W. Pan, A. Dong, W. Qiu, P. Loppnau, J. Wang, M. Ravichandran, A. Bochk C. Bountra, J. Weigelt, C. H. Arrowsmith, J. Min, A. M. Edwards, Struct Genomics Consortium (Sgc)
Date
:
11 Nov 10 (Deposition) - 26 Jan 11 (Release) - 01 Feb 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.04
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: A,B,C (1x)
Biol. Unit 8: D,E,F (1x)
Keywords
:
Sirt6, Adp Ribose, Structural Genomics, Structural Genomics Consortium, Sgc, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. W. Pan, J. L. Feldman, M. K. Devries, A. Dong, A. M. Edwards, J. M. Denu
Structure And Biochemical Functions Of Sirt6.
J. Biol. Chem. V. 286 14575 2011
[
close entry info
]
Hetero Components
(3, 30)
Info
All Hetero Components
1a: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-Y... (AR6a)
1b: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-Y... (AR6b)
1c: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-Y... (AR6c)
1d: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-Y... (AR6d)
1e: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-Y... (AR6e)
1f: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-Y... (AR6f)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
2n: SULFATE ION (SO4n)
2o: SULFATE ION (SO4o)
2p: SULFATE ION (SO4p)
2q: SULFATE ION (SO4q)
2r: SULFATE ION (SO4r)
2s: SULFATE ION (SO4s)
2t: SULFATE ION (SO4t)
2u: SULFATE ION (SO4u)
2v: SULFATE ION (SO4v)
2w: SULFATE ION (SO4w)
3a: UNKNOWN ATOM OR ION (UNXa)
3b: UNKNOWN ATOM OR ION (UNXb)
3c: UNKNOWN ATOM OR ION (UNXc)
3d: UNKNOWN ATOM OR ION (UNXd)
3e: UNKNOWN ATOM OR ION (UNXe)
3f: UNKNOWN ATOM OR ION (UNXf)
3g: UNKNOWN ATOM OR ION (UNXg)
3h: UNKNOWN ATOM OR ION (UNXh)
3i: UNKNOWN ATOM OR ION (UNXi)
3j: UNKNOWN ATOM OR ION (UNXj)
3k: UNKNOWN ATOM OR ION (UNXk)
3l: UNKNOWN ATOM OR ION (UNXl)
3m: UNKNOWN ATOM OR ION (UNXm)
3n: UNKNOWN ATOM OR ION (UNXn)
3o: UNKNOWN ATOM OR ION (UNXo)
3p: UNKNOWN ATOM OR ION (UNXp)
3q: UNKNOWN ATOM OR ION (UNXq)
3r: UNKNOWN ATOM OR ION (UNXr)
3s: UNKNOWN ATOM OR ION (UNXs)
3t: UNKNOWN ATOM OR ION (UNXt)
3u: UNKNOWN ATOM OR ION (UNXu)
3v: UNKNOWN ATOM OR ION (UNXv)
3w: UNKNOWN ATOM OR ION (UNXw)
3x: UNKNOWN ATOM OR ION (UNXx)
3y: UNKNOWN ATOM OR ION (UNXy)
3z: UNKNOWN ATOM OR ION (UNXz)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
4e: ZINC ION (ZNe)
4f: ZINC ION (ZNf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AR6
3
Ligand/Ion
[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGENPHOSPHATE
2
SO4
12
Ligand/Ion
SULFATE ION
3
UNX
15
Ligand/Ion
UNKNOWN ATOM OR ION
4
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(26, 26)
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: CC2 (SOFTWARE)
20: CC5 (SOFTWARE)
21: CC7 (SOFTWARE)
22: CC9 (SOFTWARE)
23: DC1 (SOFTWARE)
24: DC6 (SOFTWARE)
25: DC7 (SOFTWARE)
26: DC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:139 , CYS A:142 , CYS A:164 , CYS A:175
BINDING SITE FOR RESIDUE ZN A 1000
02
AC2
SOFTWARE
GLY A:50 , ALA A:51 , GLY A:52 , THR A:55 , ASP A:61 , PHE A:62 , ARG A:63 , TRP A:69 , GLN A:111 , HIS A:131 , TRP A:186 , GLY A:212 , THR A:213 , SER A:214 , ILE A:217 , ASN A:238 , LEU A:239 , GLN A:240 , GLY A:254 , TYR A:255 , VAL A:256 , HOH A:369 , HOH A:375 , HOH A:413 , HOH A:457 , HOH A:489 , ASP E:81 , HOH E:389
BINDING SITE FOR RESIDUE AR6 A 2000
03
AC3
SOFTWARE
VAL A:152 , GLY A:153 , THR A:160 , ARG A:162 , LYS B:294
BINDING SITE FOR RESIDUE SO4 A 356
04
AC4
SOFTWARE
ASP A:23 , LYS A:31 , ARG A:251 , HIS A:253 , HOH A:423 , LYS B:13 , GLU B:72
BINDING SITE FOR RESIDUE SO4 A 357
05
AC5
SOFTWARE
PRO A:65 , HIS A:66 , ARG A:74 , LEU E:76 , ALA E:77
BINDING SITE FOR RESIDUE SO4 A 358
06
AC6
SOFTWARE
HIS A:66 , LYS A:79 , HOH A:528 , HOH A:915 , HOH A:920 , HIS E:66 , LYS E:79 , HOH E:404 , HOH E:545
BINDING SITE FOR RESIDUE SO4 A 359
07
AC7
SOFTWARE
ARG A:218 , PRO A:219 , ASN A:222 , ALA F:226 , ARG F:229
BINDING SITE FOR RESIDUE SO4 A 360
08
AC8
SOFTWARE
CYS B:139 , CYS B:142 , CYS B:164 , CYS B:175
BINDING SITE FOR RESIDUE ZN B 1000
09
AC9
SOFTWARE
GLY B:50 , ALA B:51 , GLY B:52 , THR B:55 , ASP B:61 , PHE B:62 , ARG B:63 , TRP B:69 , GLN B:111 , HIS B:131 , GLY B:212 , THR B:213 , SER B:214 , ILE B:217 , ASN B:238 , LEU B:239 , GLN B:240 , GLY B:254 , TYR B:255 , VAL B:256 , HOH B:375 , HOH B:377 , HOH B:432 , HOH B:444 , ASP F:81 , HOH F:432
BINDING SITE FOR RESIDUE AR6 B 2000
10
BC1
SOFTWARE
VAL B:152 , GLY B:153 , ARG B:162 , LYS C:294
BINDING SITE FOR RESIDUE SO4 B 360
11
BC2
SOFTWARE
HIS B:66 , LYS B:79 , HOH B:392 , HOH B:421 , HOH B:916 , HIS F:66 , LYS F:79 , HOH F:641
BINDING SITE FOR RESIDUE SO4 B 361
12
BC3
SOFTWARE
GLU B:27 , LYS B:31 , ARG B:251 , HIS B:253 , HOH B:466 , LYS C:13
BINDING SITE FOR RESIDUE SO4 B 362
13
BC4
SOFTWARE
CYS C:139 , CYS C:142 , CYS C:164 , CYS C:175
BINDING SITE FOR RESIDUE ZN C 1000
14
BC5
SOFTWARE
GLY C:50 , ALA C:51 , GLY C:52 , THR C:55 , ASP C:61 , PHE C:62 , ARG C:63 , TRP C:69 , GLN C:111 , HIS C:131 , GLY C:212 , THR C:213 , SER C:214 , ILE C:217 , ASN C:238 , LEU C:239 , GLN C:240 , GLY C:254 , TYR C:255 , VAL C:256 , HOH C:368 , HOH C:370 , HOH C:385 , HOH C:398 , ASP D:81 , HOH D:393
BINDING SITE FOR RESIDUE AR6 C 2000
15
BC6
SOFTWARE
ARG C:88 , ALA C:273 , TRP C:274 , HOH C:399 , HOH C:424 , HOH C:726 , ARG D:88 , ALA D:273 , TRP D:274
BINDING SITE FOR RESIDUE SO4 C 361
16
BC7
SOFTWARE
LYS A:294 , VAL C:152 , GLY C:153 , THR C:160 , ARG C:162
BINDING SITE FOR RESIDUE SO4 C 362
17
BC8
SOFTWARE
LYS C:243 , HIS C:244 , ARG C:246 , HIS C:247
BINDING SITE FOR RESIDUE SO4 C 363
18
BC9
SOFTWARE
HIS C:66 , LYS C:79 , HOH C:404 , HOH C:409 , HOH C:464 , HIS D:66 , LYS D:79 , HOH D:421 , HOH D:431
BINDING SITE FOR RESIDUE SO4 C 364
19
CC2
SOFTWARE
ASP C:81 , HOH C:405 , GLY D:50 , ALA D:51 , GLY D:52 , THR D:55 , ASP D:61 , PHE D:62 , ARG D:63 , TRP D:69 , GLN D:111 , HIS D:131 , TRP D:186 , GLY D:212 , THR D:213 , SER D:214 , ILE D:217 , ASN D:238 , LEU D:239 , GLN D:240 , GLY D:254 , TYR D:255 , VAL D:256 , HOH D:364 , HOH D:390 , HOH D:410 , HOH D:428 , HOH D:931
BINDING SITE FOR RESIDUE AR6 D 2000
20
CC5
SOFTWARE
HIS A:247 , GLY D:171 , LEU D:172 , ARG D:173
BINDING SITE FOR RESIDUE SO4 D 359
21
CC7
SOFTWARE
ASP A:81 , HOH A:395 , GLY E:50 , ALA E:51 , GLY E:52 , THR E:55 , ASP E:61 , PHE E:62 , ARG E:63 , TRP E:69 , GLN E:111 , HIS E:131 , GLY E:212 , THR E:213 , SER E:214 , ILE E:217 , ASN E:238 , LEU E:239 , GLN E:240 , GLY E:254 , TYR E:255 , VAL E:256 , HOH E:366 , HOH E:392 , HOH E:397 , HOH E:417 , HOH E:590
BINDING SITE FOR RESIDUE AR6 E 2000
22
CC9
SOFTWARE
ARG C:180 , ARG E:203 , ARG E:230
BINDING SITE FOR RESIDUE SO4 E 357
23
DC1
SOFTWARE
ARG A:88 , ALA A:273 , TRP A:274 , ARG E:88 , ALA E:273 , TRP E:274 , HOH E:391 , HOH E:721 , HOH E:763
BINDING SITE FOR RESIDUE SO4 E 358
24
DC6
SOFTWARE
ASP B:81 , HOH B:401 , GLY F:50 , ALA F:51 , GLY F:52 , THR F:55 , ASP F:61 , PHE F:62 , ARG F:63 , TRP F:69 , GLN F:111 , HIS F:131 , GLY F:212 , THR F:213 , SER F:214 , ILE F:217 , ASN F:238 , LEU F:239 , GLN F:240 , GLY F:254 , TYR F:255 , VAL F:256 , HOH F:372 , HOH F:381 , HOH F:401 , HOH F:701
BINDING SITE FOR RESIDUE AR6 F 2000
25
DC7
SOFTWARE
ARG B:88 , ALA B:273 , TRP B:274 , ARG F:88 , ALA F:273 , TRP F:274 , HOH F:637 , HOH F:674
BINDING SITE FOR RESIDUE SO4 F 360
26
DC8
SOFTWARE
LYS A:243 , HIS A:244 , ARG A:246 , HIS A:247 , ARG D:170 , ARG F:230 , HOH F:409
BINDING SITE FOR RESIDUE SO4 F 361
[
close Site info
]
SAPs(SNPs)/Variants
(1, 3)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_017154 (S44N, chain A/B/C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_017154
S
46
N
SIR6_HUMAN
Polymorphism
352493
A/B/C
S
44
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: SIRTUIN (A:33-272,B:33-272,C:33-272)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SIRTUIN
PS50305
Sirtuin catalytic domain profile.
SIR6_HUMAN
35-274
3
A:33-272
B:33-272
C:33-272
-
-
-
[
close PROSITE info
]
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
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Label:
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)
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all PFAM domains
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Sorry, no Info available
[
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