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3KCZ
Biol. Unit 1
Info
Asym.Unit (126 KB)
Biol.Unit 1 (63 KB)
Biol.Unit 2 (62 KB)
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(1)
Title
:
HUMAN POLY(ADP-RIBOSE) POLYMERASE 2, CATALYTIC FRAGMENT IN COMPLEX WITH AN INHIBITOR 3-AMINOBENZAMIDE
Authors
:
T. Karlberg, P. Schutz, C. H. Arrowsmith, H. Berglund, C. Bountra, R. Co A. M. Edwards, S. Flodin, A. Flores, S. Graslund, M. Hammarstrom, A. Jo I. Johansson, A. Kallas, T. Kotenyova, A. Kotzsch, P. Kraulis, T. K. Ni M. Moche, P. Nordlund, T. Nyman, C. Persson, A. K. Roos, M. I. Siponen, A. G. Thorsell, L. Tresaugues, S. Van Den Berg, J. Weigelt, M. Welin, M. Wisniewska, H. Schuler, Structural Genomics Consortium (Sgc)
Date
:
22 Oct 09 (Deposition) - 10 Nov 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Transferase, Enzyme-Inhibitor Complex, Catalytic Fragment, Structural Genomics, Structural Genomics Consortium, Sgc, Glycosyltransferase, Nad, Nucleus, Dna-Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
T. Karlberg, M. Hammarstrom, P. Schutz, L. Svensson, H. Schuler
Crystal Structure Of The Catalytic Domain Of Human Parp2 In Complex With Parp Inhibitor Abt-888.
Biochemistry V. 49 1056 2010
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: 3-AMINOBENZAMIDE (3ABa)
1b: 3-AMINOBENZAMIDE (3ABb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
3AB
1
Ligand/Ion
3-AMINOBENZAMIDE
2
GOL
1
Ligand/Ion
GLYCEROL
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:428 , GLY A:429 , PHE A:463 , SER A:470 , TYR A:473
BINDING SITE FOR RESIDUE 3AB A 1
2
AC2
SOFTWARE
ASP A:396 , TYR A:397 , ALA A:471 , ASN A:472 , PHE A:475 , ALA A:476 , PHE A:577
BINDING SITE FOR RESIDUE GOL A 580
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SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_019176 (D235G, chain A, )
2: VAR_019177 (I285V, chain A, )
3: VAR_019178 (R296Q, chain A, )
4: VAR_050462 (I331T, chain A, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_019176
D
235
G
PARP2_HUMAN
Polymorphism
3093921
A
D
235
G
2
UniProt
VAR_019177
I
285
V
PARP2_HUMAN
Polymorphism
3093925
A
I
285
V
3
UniProt
VAR_019178
R
296
Q
PARP2_HUMAN
Polymorphism
3093926
A
R
296
Q
4
UniProt
VAR_050462
I
331
T
PARP2_HUMAN
Polymorphism
2275010
A
I
331
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: PARP_ALPHA_HD (A:235-348)
2: PARP_CATALYTIC (A:356-579)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PARP_ALPHA_HD
PS51060
PARP alpha-helical domain profile.
PARP2_HUMAN
231-348
1
A:235-348
-
2
PARP_CATALYTIC
PS51059
PARP catalytic domain profile.
PARP2_HUMAN
356-583
1
A:356-579
-
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3kcza1 (A:224-364)
1b: SCOP_d3kczb1 (B:226-364)
2a: SCOP_d3kcza2 (A:365-579)
2b: SCOP_d3kczb2 (B:365-579)
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)
Protein Domains
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Organisms
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Class
:
All alpha proteins
(14657)
Fold
:
Domain of poly(ADP-ribose) polymerase
(38)
Superfamily
:
Domain of poly(ADP-ribose) polymerase
(38)
Family
:
automated matches
(22)
Protein domain
:
automated matches
(22)
Human (Homo sapiens) [TaxId: 9606]
(22)
1a
d3kcza1
A:224-364
1b
d3kczb1
B:226-364
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
ADP-ribosylation
(157)
Superfamily
:
ADP-ribosylation
(157)
Family
:
Poly(ADP-ribose) polymerase, C-terminal domain
(18)
Protein domain
:
automated matches
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d3kcza2
A:365-579
2b
d3kczb2
B:365-579
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_3kczA02 (A:366-579)
1b: CATH_3kczB02 (B:366-579)
2a: CATH_3kczB01 (B:226-365)
2b: CATH_3kczA01 (A:224-365)
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)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Phosphoenolpyruvate Carboxykinase; domain 3
(62)
Homologous Superfamily
:
[code=3.90.228.10, no name defined]
(20)
Human (Homo sapiens)
(12)
1a
3kczA02
A:366-579
1b
3kczB02
B:366-579
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Poly(ADP-ribose) Polymerase; domain 1
(21)
Homologous Superfamily
:
Poly(ADP-ribose) Polymerase, domain 1
(21)
Human (Homo sapiens)
(12)
2a
3kczB01
B:226-365
2b
3kczA01
A:224-365
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_PARP_3kczB01 (B:365-577)
1b: PFAM_PARP_3kczB02 (B:365-577)
2a: PFAM_PARP_reg_3kczB03 (B:235-363)
2b: PFAM_PARP_reg_3kczB04 (B:235-363)
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Organisms
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)
(
)
Clan
:
ADP-ribosyl
(56)
Family
:
PARP
(21)
Homo sapiens (Human)
(18)
1a
PARP-3kczB01
B:365-577
1b
PARP-3kczB02
B:365-577
Clan
:
no clan defined [family: PARP_reg]
(10)
Family
:
PARP_reg
(10)
Homo sapiens (Human)
(7)
2a
PARP_reg-3kczB03
B:235-363
2b
PARP_reg-3kczB04
B:235-363
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Chain A
Asymmetric Unit 1
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Asym.Unit (126 KB)
Header - Asym.Unit
Biol.Unit 1 (63 KB)
Header - Biol.Unit 1
Biol.Unit 2 (62 KB)
Header - Biol.Unit 2
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