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4HNO
Asym. Unit
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Asym.Unit (171 KB)
Biol.Unit 1 (165 KB)
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(1)
Title
:
HIGH RESOLUTION CRYSTAL STRUCTURE OF DNA APURINIC/APYRIMIDINIC (AP) ENDONUCLEASE IV NFO FROM THERMATOGA MARITIMA
Authors
:
D. S. Shin, D. J. Hosfield, A. S. Arvai, S. E. Tsutakawa, J. A. Tainer
Date
:
20 Oct 12 (Deposition) - 23 Jan 13 (Release) - 10 Apr 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
0.92
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Endonuclease 4, Endodeoxyribonuclease Iv, Endo Iv, Nfo, Metalloprotein, Dna Damage, Dna Repair, Base Excision Repair, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. E. Tsutakawa, D. S. Shin, C. D. Mol, T. Izumi, A. S. Arvai, A. K. Mantha B. Szczesny, I. N. Ivanov, D. J. Hosfield, B. Maiti, M. E. Pique, K. A. Frankel, K. Hitomi, R. P. Cunningham, S. Mitra, J. A. Tainer
Conserved Structural Chemistry For Incision Activity In Structurally Non-Homologous Apurinic/Apyrimidinic Endonuclease Ape1 And Endonuclease Iv Dna Repair Enzymes.
J. Biol. Chem. V. 288 8445 2013
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Hetero Components
(6, 10)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
2a: MAGNESIUM ION (MGa)
3a: MANGANESE (II) ION (MNa)
3b: MANGANESE (II) ION (MNb)
4a: SULFATE ION (SO4a)
5a: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSa)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
6c: ZINC ION (ZNc)
View:
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Label:
No.
Name
Count
Type
Full Name
1
EDO
2
Ligand/Ion
1,2-ETHANEDIOL
2
MG
1
Ligand/Ion
MAGNESIUM ION
3
MN
2
Ligand/Ion
MANGANESE (II) ION
4
SO4
1
Ligand/Ion
SULFATE ION
5
TRS
1
Ligand/Ion
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
6
ZN
3
Ligand/Ion
ZINC ION
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Sites
(10, 10)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:69 , HIS A:109 , GLU A:144 , MN A:304 , ZN A:305 , HOH A:786
BINDING SITE FOR RESIDUE ZN A 301
02
AC2
SOFTWARE
HIS A:181 , ASP A:228 , HIS A:230 , TRS A:307 , EDO A:308
BINDING SITE FOR RESIDUE MN A 302
03
AC3
SOFTWARE
HIS A:181 , ASP A:228 , HIS A:230 , TRS A:307 , EDO A:308
BINDING SITE FOR RESIDUE ZN A 303
04
AC4
SOFTWARE
GLU A:144 , ASP A:178 , HIS A:181 , HIS A:215 , GLU A:260 , ZN A:301 , TRS A:307 , EDO A:308 , HOH A:786
BINDING SITE FOR RESIDUE MN A 304
05
AC5
SOFTWARE
GLU A:144 , ASP A:178 , HIS A:215 , GLU A:260 , ZN A:301 , HOH A:786
BINDING SITE FOR RESIDUE ZN A 305
06
AC6
SOFTWARE
HOH A:613 , HOH A:717 , HOH A:754 , HOH A:780 , HOH A:824 , HOH A:826
BINDING SITE FOR RESIDUE MG A 306
07
AC7
SOFTWARE
TYR A:72 , HIS A:109 , HIS A:181 , ASP A:228 , HIS A:230 , MN A:302 , ZN A:303 , MN A:304 , HOH A:614 , HOH A:688 , HOH A:701 , HOH A:711 , HOH A:786 , HOH A:823
BINDING SITE FOR RESIDUE TRS A 307
08
AC8
SOFTWARE
TYR A:72 , HIS A:181 , ASP A:228 , HIS A:230 , MN A:302 , ZN A:303 , MN A:304 , HOH A:614 , HOH A:786 , HOH A:823
BINDING SITE FOR RESIDUE EDO A 308
09
AC9
SOFTWARE
ARG A:127 , ASP A:188 , THR A:190 , HOH A:411
BINDING SITE FOR RESIDUE EDO A 309
10
BC1
SOFTWARE
GLU A:47 , LYS A:51 , ARG A:54 , LYS A:220 , HOH A:722 , HOH A:747 , HOH A:750 , HOH A:810
BINDING SITE FOR RESIDUE SO4 A 310
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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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
(1, 1)
Info
All SCOP Domains
1a: SCOP_d4hnoa_ (A:)
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Protein Domains
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)
(
)
Organisms
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)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Xylose isomerase-like
(125)
Family
:
automated matches
(5)
Protein domain
:
automated matches
(5)
Thermotoga maritima [TaxId: 243274]
(3)
1a
d4hnoa_
A:
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CATH Domains
(0, 0)
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all 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 (171 KB)
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Header - Biol.Unit 1
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