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4XJ5
Asym. Unit
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Asym.Unit (138 KB)
Biol.Unit 1 (131 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF VIBRIO CHOLERAE DNCV 3'-DEOXY GTP BOUND FORM
Authors
:
K. Kato, R. Ishii, R. Ishitani, O. Nureki
Date
:
08 Jan 15 (Deposition) - 29 Apr 15 (Release) - 20 May 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.55
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Cyclic Gmp-Amp Synthase, Bacterial Virulence, Nucleotidyltransferase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Kato, R. Ishii, S. Hirano, R. Ishitani, O. Nureki
Structural Basis For The Catalytic Mechanism Of Dncv, Bacterial Homolog Of Cyclic Gmp-Amp Synthase
Structure V. 23 843 2015
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Hetero Components
(4, 15)
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)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
2a: 3'-DEOXY-GUANOSINE-5'-TRIPHOSPHATE (GH3a)
2b: 3'-DEOXY-GUANOSINE-5'-TRIPHOSPHATE (GH3b)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
4a: SODIUM ION (NAa)
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Label:
No.
Name
Count
Type
Full Name
1
EDO
10
Ligand/Ion
1,2-ETHANEDIOL
2
GH3
2
Ligand/Ion
3'-DEOXY-GUANOSINE-5'-TRIPHOSPHATE
3
MG
2
Ligand/Ion
MAGNESIUM ION
4
NA
1
Ligand/Ion
SODIUM 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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:131 , ASP A:133 , GH3 A:1014 , HOH A:1282
binding site for residue MG A 1001
02
AC2
SOFTWARE
ASP A:131 , ASP A:133 , ASP A:193 , GH3 A:1013 , GH3 A:1014 , HOH A:1303
binding site for residue MG A 1002
03
AC3
SOFTWARE
ALA A:292 , ASN A:394 , MET A:395 , GLY A:398 , HOH A:1221
binding site for residue EDO A 1003
04
AC4
SOFTWARE
GLY A:297 , GLY A:298 , SER A:300 , HOH A:1127 , HOH A:1188 , HOH A:1253
binding site for residue EDO A 1004
05
AC5
SOFTWARE
LYS A:277 , ALA A:316 , GLU A:324
binding site for residue EDO A 1005
06
AC6
SOFTWARE
MET A:3 , TRP A:5 , GLU A:381 , SER A:382 , ALA A:383
binding site for residue EDO A 1006
07
AC7
SOFTWARE
PHE A:64 , TRP A:294 , ASP A:295 , VAL A:296 , HOH A:1116 , HOH A:1120 , HOH A:1141 , HOH A:1197
binding site for residue EDO A 1007
08
AC8
SOFTWARE
LYS A:29 , SER A:114 , PHE A:115 , ASP A:118 , THR A:119 , LEU A:120 , ARG A:284 , HOH A:1183
binding site for residue EDO A 1008
09
AC9
SOFTWARE
ARG A:108
binding site for residue EDO A 1009
10
AD1
SOFTWARE
SER A:314 , HIS A:332 , GLU A:336 , HOH A:1340
binding site for residue EDO A 1010
11
AD2
SOFTWARE
PHE A:7 , TYR A:11 , GLY A:323 , LEU A:377 , GLU A:381 , ILE A:393
binding site for residue EDO A 1011
12
AD3
SOFTWARE
LYS A:277 , HIS A:317 , ASP A:318 , ALA A:319 , HOH A:1106 , HOH A:1132 , HOH A:1137 , HOH A:1256
binding site for residue EDO A 1012
13
AD4
SOFTWARE
GLN A:112 , ASP A:133 , LYS A:177 , THR A:179 , CYS A:180 , ASP A:193 , TYR A:197 , SER A:259 , MG A:1002 , GH3 A:1014
binding site for residue GH3 A 1013
14
AD5
SOFTWARE
GLN A:112 , GLY A:113 , SER A:114 , TYR A:117 , ASP A:131 , ASP A:133 , LYS A:287 , SER A:301 , ASP A:348 , LEU A:352 , MG A:1001 , MG A:1002 , GH3 A:1013 , HOH A:1184 , HOH A:1199 , HOH A:1207 , HOH A:1250 , HOH A:1272 , HOH A:1279 , HOH A:1282 , HOH A:1283 , HOH A:1284 , HOH A:1286 , HOH A:1303
binding site for residue GH3 A 1014
15
AD6
SOFTWARE
TRP A:289 , LYS A:369 , LEU A:373 , ILE A:376 , HOH A:1181
binding site for residue NA A 1015
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SAPs(SNPs)/Variants
(0, 0)
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Exons
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SCOP Domains
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CATH Domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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Asym.Unit (138 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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