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3PWK
Asym. Unit
Info
Asym.Unit (265 KB)
Biol.Unit 1 (259 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ASPARTATE BETA-SEMIALDEHIDE DEHYDROGENASE FROM STREPTOCOCCUS PNEUMONIAE WITH 2',5'-ADENOSINE DIPHOSPHATE AND D-2-AMINOADIPATE
Authors
:
A. G. Pavlovsky, R. E. Viola
Date
:
08 Dec 10 (Deposition) - 04 Jan 12 (Release) - 04 Jan 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.50
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Dehydrogenase, Nadp Binding, Oxidoreductase-Oxidoreductase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. G. Pavlovsky, X. Liu, C. R. Faehnle, N. Potente, R. E. Viola
Structural Characterization Of Inhibitors With Selectivity Against Members Of A Homologous Enzyme Family.
Chem. Biol. Drug Des. V. 79 128 2012
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Hetero Components
(4, 14)
Info
All Hetero Components
1a: 5'-O-MONOPHOSPHORYLADENYLYL(2'->5'... (25Aa)
1b: 5'-O-MONOPHOSPHORYLADENYLYL(2'->5'... (25Ab)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
3a: TRANS-CYCLOHEXANE-1,4-DICARBOXYLIC... (L14a)
3b: TRANS-CYCLOHEXANE-1,4-DICARBOXYLIC... (L14b)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
25A
2
Ligand/Ion
5'-O-MONOPHOSPHORYLADENYLYL(2'->5')ADENYLYL(2'->5')ADENOSINE
2
EDO
8
Ligand/Ion
1,2-ETHANEDIOL
3
L14
2
Ligand/Ion
TRANS-CYCLOHEXANE-1,4-DICARBOXYLIC ACID
4
NA
2
Ligand/Ion
SODIUM ION
[
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Sites
(14, 14)
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)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:9 , THR A:11 , GLY A:12 , ALA A:13 , ALA A:36 , SER A:37 , ARG A:39 , SER A:40 , THR A:57 , ALA A:72 , THR A:76 , GLY A:161 , MET A:162 , HOH A:451 , HOH A:544 , HOH A:548 , HOH A:639 , HOH A:711 , HOH A:1212
BINDING SITE FOR RESIDUE 25A A 367
02
AC2
SOFTWARE
GLY B:9 , THR B:11 , GLY B:12 , ALA B:13 , ALA B:36 , SER B:37 , ARG B:39 , SER B:40 , THR B:57 , ALA B:72 , THR B:76 , GLY B:161 , MET B:162 , HOH B:447 , HOH B:536 , HOH B:600 , HOH B:603 , HOH B:604 , HOH B:625 , HOH B:628 , HOH B:718
BINDING SITE FOR RESIDUE 25A B 367
03
AC3
SOFTWARE
SER A:96 , ARG A:99 , GLY A:159 , ALA A:160 , GLU A:220 , LYS A:223 , ARG A:245 , HOH A:589 , HOH A:1220
BINDING SITE FOR RESIDUE L14 A 368
04
AC4
SOFTWARE
SER B:96 , ARG B:99 , ASN B:127 , GLY B:159 , ALA B:160 , GLU B:220 , LYS B:223 , ARG B:245 , HOH B:653 , HOH B:888 , HOH B:1237
BINDING SITE FOR RESIDUE L14 B 368
05
AC5
SOFTWARE
THR A:26 , EDO A:369 , HOH A:592 , GLU B:24 , SER B:25 , TRP B:332 , GLU B:339 , HOH B:446 , HOH B:587
BINDING SITE FOR RESIDUE EDO B 369
06
AC6
SOFTWARE
GLU A:24 , SER A:25 , TRP A:332 , GLU A:339 , HOH A:376 , HOH A:498 , HOH A:592 , THR B:26 , EDO B:369
BINDING SITE FOR RESIDUE EDO A 369
07
AC7
SOFTWARE
SER A:250 , GLY A:298 , ASP A:324 , LEU A:326 , HOH A:555 , HOH A:950
BINDING SITE FOR RESIDUE EDO A 370
08
AC8
SOFTWARE
SER B:250 , GLY B:298 , ASP B:324 , LEU B:326 , HOH B:466
BINDING SITE FOR RESIDUE EDO B 370
09
AC9
SOFTWARE
ASP A:312 , HOH A:497 , HOH A:1319 , LYS B:229
BINDING SITE FOR RESIDUE EDO A 371
10
BC1
SOFTWARE
GLY A:2 , PRO A:28 , HOH B:436 , HOH B:1204
BINDING SITE FOR RESIDUE EDO B 371
11
BC2
SOFTWARE
LYS A:229 , ASP B:312 , HOH B:416
BINDING SITE FOR RESIDUE EDO B 372
12
BC3
SOFTWARE
HOH A:402 , GLY B:2 , HOH B:1121
BINDING SITE FOR RESIDUE EDO A 372
13
BC4
SOFTWARE
ILE A:273 , ALA A:274 , PHE A:276 , ALA A:279 , GLU B:343 , HOH B:613
BINDING SITE FOR RESIDUE NA A 373
14
BC5
SOFTWARE
ASP B:147 , SER B:236 , HOH B:474 , HOH B:914 , HOH B:939
BINDING SITE FOR RESIDUE NA B 373
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3pwka2 (A:128-329)
1b: SCOP_d3pwkb2 (B:128-329)
2a: SCOP_d3pwka1 (A:2-127,A:330-358)
2b: SCOP_d3pwkb1 (B:2-127,B:330-360)
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Protein Domains
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Organisms
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(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FwdE/GAPDH domain-like
(188)
Superfamily
:
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
(179)
Family
:
GAPDH-like
(99)
Protein domain
:
Aspartate beta-semialdehyde dehydrogenase
(31)
Pneumococcus (Streptococcus pneumoniae) [TaxId: 1313]
(11)
1a
d3pwka2
A:128-329
1b
d3pwkb2
B:128-329
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
(179)
Protein domain
:
Aspartate beta-semialdehyde dehydrogenase
(31)
Pneumococcus (Streptococcus pneumoniae) [TaxId: 1313]
(11)
2a
d3pwka1
A:2-127,A:330-358
2b
d3pwkb1
B:2-127,B:330-360
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CATH Domains
(0, 0)
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Pfam Domains
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Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (265 KB)
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