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Asym. Unit
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Asym.Unit (402 KB)
Biol.Unit 1 (198 KB)
Biol.Unit 2 (199 KB)
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(1)
Title
:
VIBRIO CHOLERAE O395 RIBOKINASE COMPLEXED WITH RIBOSE, ADP AND SODIUM ION.
Authors
:
R. Paul, M. D. Patra, U. Sen
Date
:
19 Dec 14 (Deposition) - 04 Mar 15 (Release) - 04 Mar 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Ribokinase, Ribose, Kinase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Paul, M. D. Patra, U. Sen
Crystal Structure Of Apo And Ligand Bound Vibrio Cholerae Ribokinase (Vc-Rk): Role Of Monovalent Cation Induced Activation And Structural Flexibility In Sugar Phosphorylation
Adv. Exp. Med. Biol. V. 842 293 2015
(for further references see the
PDB file header
)
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Hetero Components
(3, 12)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
1c: ADENOSINE-5'-DIPHOSPHATE (ADPc)
1d: ADENOSINE-5'-DIPHOSPHATE (ADPd)
1e: ADENOSINE-5'-DIPHOSPHATE (ADPe)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
2c: SODIUM ION (NAc)
2d: SODIUM ION (NAd)
3a: RIBOSE (RIBa)
3b: RIBOSE (RIBb)
3c: RIBOSE (RIBc)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ADP
5
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
NA
4
Ligand/Ion
SODIUM ION
3
RIB
3
Ligand/Ion
RIBOSE
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Sites
(12, 12)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:11 , ASP A:13 , GLY A:38 , GLY A:39 , LYS A:40 , ASN A:43 , ALA A:95 , GLU A:140 , ASP A:252 , ALA A:288 , HOH A:564
binding site for residue RIB A 401
02
AC2
SOFTWARE
ASN A:184 , GLY A:222 , SER A:223 , GLY A:225 , VAL A:226 , PHE A:240 , VAL A:242 , ALA A:250 , HIS A:276 , ALA A:279 , VAL A:283 , HOH A:562 , HOH A:640 , HOH A:653 , HOH A:659 , HOH A:670 , HOH A:707
binding site for residue ADP A 402
03
AC3
SOFTWARE
ASP A:246 , THR A:248 , SER A:282 , ARG A:285 , SER A:291 , HOH A:565 , HOH A:568
binding site for residue NA A 403
04
AC4
SOFTWARE
ASN B:184 , THR B:220 , LEU B:221 , GLY B:222 , GLY B:225 , VAL B:226 , PHE B:240 , VAL B:242 , ALA B:244 , ALA B:250 , GLY B:251 , HIS B:276 , ALA B:279 , ADP B:402 , HOH B:510 , HOH B:558 , HOH B:567 , HOH B:636 , HOH B:729
binding site for residue ADP B 401
05
AC5
SOFTWARE
THR A:27 , ASN B:11 , ASP B:13 , GLY B:38 , GLY B:39 , LYS B:40 , ASN B:43 , ILE B:109 , GLU B:140 , THR B:247 , THR B:248 , ALA B:249 , ALA B:250 , GLY B:251 , ASP B:252 , ALA B:288 , ADP B:401 , HOH B:581 , HOH B:686 , HOH B:740 , HOH B:745
binding site for residue ADP B 402
06
AC6
SOFTWARE
ASP B:246 , SER B:282 , ARG B:285 , SER B:291 , HOH B:593 , HOH B:633
binding site for residue NA B 403
07
AC7
SOFTWARE
ASN C:11 , ASP C:13 , GLY C:38 , GLY C:39 , LYS C:40 , ASN C:43 , ALA C:95 , GLU C:140 , THR C:248 , ASP C:252 , ALA C:288 , HOH C:547
binding site for residue RIB C 401
08
AC8
SOFTWARE
ASN C:184 , THR C:220 , GLY C:222 , SER C:223 , GLY C:225 , VAL C:226 , PHE C:240 , VAL C:242 , ALA C:250 , HIS C:276 , ALA C:279 , HOH C:570 , HOH C:589 , HOH C:590 , HOH C:612 , HOH C:641 , HOH C:646 , HOH C:739
binding site for residue ADP C 402
09
AC9
SOFTWARE
ASP C:246 , SER C:282 , ARG C:285 , SER C:291 , HOH C:643 , HOH C:687 , HOH C:733
binding site for residue NA C 403
10
AD1
SOFTWARE
ASN D:11 , ASP D:13 , GLY D:38 , GLY D:39 , LYS D:40 , ASN D:43 , GLU D:140 , THR D:248 , ASP D:252 , HOH D:687
binding site for residue RIB D 401
11
AD2
SOFTWARE
ASN D:184 , THR D:220 , LEU D:221 , GLY D:222 , SER D:223 , VAL D:226 , PHE D:240 , VAL D:242 , ALA D:250 , GLY D:251 , PHE D:254 , HIS D:276 , ALA D:279 , HOH D:594 , HOH D:605 , HOH D:643 , HOH D:669 , HOH D:681 , HOH D:683 , HOH D:686 , HOH D:691 , HOH D:747
binding site for residue ADP D 402
12
AD3
SOFTWARE
ASP D:246 , SER D:282 , ARG D:285 , GLY D:287 , SER D:291
binding site for residue NA D 403
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SAPs(SNPs)/Variants
(0, 0)
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Exons
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Asym.Unit (402 KB)
Header - Asym.Unit
Biol.Unit 1 (198 KB)
Header - Biol.Unit 1
Biol.Unit 2 (199 KB)
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