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5FBG
Biol. Unit 1
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Asym.Unit (108 KB)
Biol.Unit 1 (53 KB)
Biol.Unit 2 (52 KB)
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(1)
Title
:
S1 NUCLEASE FROM ASPERGILLUS ORYZAE, MUTANT D65N, IN COMPLEX WITH PHOSPHATE, 2'-DEOXYCYTIDINE AND 2'-DEOXYGUANOSINE.
Authors
:
T. Koval, L. H. Oestergaard, J. Dohnalek
Date
:
14 Dec 15 (Deposition) - 28 Dec 16 (Release) - 11 Jan 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.97
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Endonuclease, Zinc Dependent, Complex, Mutant, Hydrolase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
T. Koval, L. H. Stergaard, J. Lehmbeck, A. Nrgaard, P. Lipovova, J. Duskova, T. Skalova, M. Trundova, P. Kolenko, K. Fejfarova, J. Stransky, L. Svecova, J. Hasek, J. Dohnalek
Structural And Catalytic Properties Of S1 Nuclease From Aspergillus Oryzae Responsible For Substrate Recognition, Cleavage, Non-Specificity, And Inhibition.
Plos One V. 11 68832 2016
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Hetero Components
(3, 5)
Info
All Hetero Components
1a: 2'-DEOXYCYTIDINE (DCZa)
1b: 2'-DEOXYCYTIDINE (DCZb)
2a: 2'-DEOXY-GUANOSINE (GNGa)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4a: PHOSPHATE ION (PO4a)
4b: PHOSPHATE ION (PO4b)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
5e: ZINC ION (ZNe)
5f: ZINC ION (ZNf)
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No.
Name
Count
Type
Full Name
1
DCZ
2
Ligand/Ion
2'-DEOXYCYTIDINE
2
GNG
-1
Ligand/Ion
2'-DEOXY-GUANOSINE
3
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
PO4
1
Ligand/Ion
PHOSPHATE ION
5
ZN
-1
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: AD1 (SOFTWARE)
08: AD2 (SOFTWARE)
09: AD3 (SOFTWARE)
10: AD4 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TRP A:21 , HIS A:26 , ASP A:139 , ZN A:402 , PO4 A:601
binding site for residue ZN A 401
02
AC2
SOFTWARE
ASN A:65 , HIS A:80 , HIS A:135 , ASP A:139 , ZN A:401 , PO4 A:601
binding site for residue ZN A 402
03
AC3
SOFTWARE
HIS A:145 , HIS A:168 , ASP A:172 , PO4 A:601
binding site for residue ZN A 403
04
AC4
SOFTWARE
TRP A:21 , HIS A:26 , ASN A:65 , LYS A:68 , HIS A:80 , HIS A:135 , ASP A:139 , HIS A:145 , ASP A:172 , ZN A:401 , ZN A:402 , ZN A:403 , DCZ A:701 , HOH A:1108 , HOH A:1175
binding site for residue PO4 A 601
05
AC5
SOFTWARE
LYS A:68 , TYR A:69 , PHE A:81 , ASP A:83 , HIS A:145 , ALA A:151 , ASN A:154 , HIS A:168 , PO4 A:601 , HOH A:805 , HOH A:1048 , HOH A:1069 , HOH A:1234
binding site for residue DCZ A 701
06
AC6
SOFTWARE
GLU A:177 , TYR A:183 , HOH A:1032 , LYS B:218 , HOH B:1118
binding site for residue DCZ A 702
07
AD1
SOFTWARE
HOH A:1209 , TRP B:21 , HIS B:26 , ASN B:65 , LYS B:68 , HIS B:80 , HIS B:135 , ASP B:139 , HIS B:145 , ASP B:172 , ZN B:401 , ZN B:402 , ZN B:403 , HOH B:1027 , HOH B:1034 , HOH B:1137
binding site for residue PO4 B 601
08
AD2
SOFTWARE
GLY A:214 , ILE A:226 , PHE B:81 , ASP B:83 , HIS B:145 , ALA B:151 , GLY B:152 , ASN B:154 , HIS B:168 , HOH B:805 , HOH B:1027 , HOH B:1034 , HOH B:1115 , HOH B:1181
binding site for residue GNG B 701
09
AD3
SOFTWARE
PHE A:75 , TYR A:79 , ASN A:112 , TYR A:113 , GLU A:125 , HOH A:1006 , HOH A:1040 , HOH A:1164 , HOH A:1179
binding site for Mono-Saccharide NAG A 501 bound to ASN A 112
10
AD4
SOFTWARE
ASN A:248 , HOH A:1019 , HOH A:1024 , HOH A:1191 , HOH A:1215 , GLU B:255 , ASP B:258 , HOH B:1065
binding site for Mono-Saccharide NAG A 502 bound to ASN A 248
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SAPs(SNPs)/Variants
(0, 0)
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Exons
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SCOP Domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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Asym.Unit (108 KB)
Header - Asym.Unit
Biol.Unit 1 (53 KB)
Header - Biol.Unit 1
Biol.Unit 2 (52 KB)
Header - Biol.Unit 2
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