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5C7T
Biol. Unit 1
Info
Asym.Unit (75 KB)
Biol.Unit 1 (70 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE BDELLOVIBRIO BACTERIOVORUS NUCLEOSIDE DIPHOSPHATE SUGAR HYDROLASE IN COMPLEX WITH ADP-RIBOSE
Authors
:
S. B. Gabelli, A. H. De La Pena, A. Suarez, L. M. Amzel
Date
:
24 Jun 15 (Deposition) - 20 Jan 16 (Release) - 20 Jan 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.06
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Nudix, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. H. De La Pena, A. Suarez, K. C. Duong-Ly, A. J. Schoeffield, M. A. Pizarro-Dupuy, M. Zarr, S. A. Pineiro, L. M. Amzel, S. B. Gabelli
Structural And Enzymatic Characterization Of A Nucleoside Diphosphate Sugar Hydrolase From Bdellovibrio Bacteriovorus
Plos One V. 10 41716 2015
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Hetero Components
(6, 18)
Info
All Hetero Components
1a: ADENOSINE-5-DIPHOSPHORIBOSE (APRa)
1b: ADENOSINE-5-DIPHOSPHORIBOSE (APRb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
3a: DI(HYDROXYETHYL)ETHER (PEGa)
4a: 2-(2-METHOXYETHOXY)ETHANOL (PG0a)
5a: TRIETHYLENE GLYCOL (PGEa)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
6d: SULFATE ION (SO4d)
6e: SULFATE ION (SO4e)
6f: SULFATE ION (SO4f)
View:
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Label:
No.
Name
Count
Type
Full Name
1
APR
2
Ligand/Ion
ADENOSINE-5-DIPHOSPHORIBOSE
2
GOL
7
Ligand/Ion
GLYCEROL
3
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
4
PG0
1
Ligand/Ion
2-(2-METHOXYETHOXY)ETHANOL
5
PGE
1
Ligand/Ion
TRIETHYLENE GLYCOL
6
SO4
6
Ligand/Ion
SULFATE ION
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Sites
(18, 18)
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)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:19 , ARG A:64 , GLY A:77 , LYS A:78 , GLU A:119 , GLY A:139 , LYS A:165 , HOH A:309 , HOH A:321 , HOH A:329 , HOH A:330 , HOH A:354 , HOH A:381 , HOH A:389 , THR B:36 , ARG B:37 , GLU B:38 , ILE B:114 , GLY B:115 , SO4 B:201
binding site for residue APR A 201
02
AC2
SOFTWARE
ARG A:18 , TYR A:19 , HOH A:311 , TYR B:35 , THR B:36 , HOH B:320
binding site for residue SO4 A 202
03
AC3
SOFTWARE
ARG A:12 , GLN A:26 , ARG A:127 , HOH A:334 , PEG B:202
binding site for residue SO4 A 203
04
AC4
SOFTWARE
LYS A:90 , HOH A:301 , HOH A:343
binding site for residue SO4 A 204
05
AC5
SOFTWARE
ILE A:14 , LEU A:51 , ARG A:127 , ASP A:128 , HOH A:346 , HOH A:353 , HOH A:380
binding site for residue GOL A 205
06
AC6
SOFTWARE
LYS A:69 , VAL A:70 , PHE A:71 , GLY A:159 , LYS A:160 , VAL A:161 , SER A:162 , HOH A:314 , HIS B:111
binding site for residue GOL A 206
07
AC7
SOFTWARE
PRO A:149 , ALA A:150 , MET A:153 , ASP A:174 , HOH A:324
binding site for residue GOL A 207
08
AC8
SOFTWARE
HIS A:61 , VAL A:70 , HOH A:355
binding site for residue PG0 A 208
09
AC9
SOFTWARE
THR A:34 , TYR A:35 , THR A:36 , GLY A:179 , ARG B:18 , TYR B:19
binding site for residue SO4 A 209
10
AD1
SOFTWARE
ARG A:37 , HOH A:347 , HOH A:349 , HOH A:371 , TYR B:63 , ARG B:64 , APR B:203
binding site for residue SO4 A 210
11
AD2
SOFTWARE
TYR A:63 , ARG A:64 , APR A:201 , ARG B:37 , GLY B:115 , HOH B:317 , HOH B:331
binding site for residue SO4 B 201
12
AD3
SOFTWARE
GLN A:26 , THR A:36 , PHE A:176 , LEU A:177 , ASN A:182 , SO4 A:203 , HOH A:315 , ARG B:18
binding site for residue PEG B 202
13
AD4
SOFTWARE
THR A:36 , ARG A:37 , GLU A:38 , ILE A:114 , GLY A:115 , TYR A:116 , SO4 A:210 , HOH A:347 , TYR B:19 , ARG B:64 , ALA B:76 , GLY B:77 , LYS B:78 , GLU B:119 , GLN B:138 , GLY B:139 , GLN B:140 , LYS B:165 , GOL B:204 , HOH B:330 , HOH B:349 , HOH B:353 , HOH B:371
binding site for residue APR B 203
14
AD5
SOFTWARE
LYS B:78 , ASP B:80 , ARG B:91 , GLU B:92 , APR B:203 , HOH B:338
binding site for residue GOL B 204
15
AD6
SOFTWARE
LYS B:69 , VAL B:70 , PHE B:71 , LEU B:72 , GLY B:159 , LYS B:160 , SER B:162 , PGE B:208 , HOH B:343
binding site for residue GOL B 205
16
AD7
SOFTWARE
ARG A:18 , HIS B:131 , HOH B:319 , HOH B:358
binding site for residue GOL B 206
17
AD8
SOFTWARE
ASN B:56 , GLU B:146 , LYS B:148
binding site for residue GOL B 207
18
AD9
SOFTWARE
HIS B:61 , LYS B:160 , GOL B:205 , HOH B:321
binding site for residue PGE B 208
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SAPs(SNPs)/Variants
(0, 0)
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Asymmetric Unit 1
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