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3PZB
Asym. Unit
Info
Asym.Unit (240 KB)
Biol.Unit 1 (234 KB)
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(1)
Title
:
CRYSTALS STRUCTURE OF ASPARTATE BETA-SEMIALDEHYDE DEHYDROGENASE COMPLEX WITH NADP AND D-2,3-DIAMINOPROPIONATE
Authors
:
A. G. Pavlovsky, R. E. Viola
Date
:
14 Dec 10 (Deposition) - 04 Jan 12 (Release) - 14 May 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Nadp, 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, 10)
Info
All Hetero Components
1a: 3-AMINO-D-ALANINE (2RAa)
1b: 3-AMINO-D-ALANINE (2RAb)
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)
4a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
4b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
3a: SODIUM ION (NAa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
2RA
2
Ligand/Ion
3-AMINO-D-ALANINE
2
EDO
5
Ligand/Ion
1,2-ETHANEDIOL
3
NA
1
Ligand/Ion
SODIUM ION
4
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
[
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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: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN B:127 , CYS B:128 , GLN B:155 , GLY B:159 , ILE B:209 , GLU B:220 , ARG B:245 , NAP B:368
BINDING SITE FOR RESIDUE 2RA B 367
02
AC2
SOFTWARE
ASN A:127 , CYS A:128 , GLN A:155 , GLY A:159 , ILE A:209 , GLU A:220 , ARG A:245 , NAP A:368
BINDING SITE FOR RESIDUE 2RA A 367
03
AC3
SOFTWARE
GLY A:9 , THR A:11 , GLY A:12 , ALA A:13 , VAL A:14 , ALA A:36 , SER A:37 , ARG A:39 , SER A:40 , THR A:57 , SER A:71 , ALA A:72 , GLY A:73 , THR A:76 , ASN A:94 , THR A:95 , CYS A:128 , SER A:158 , GLY A:159 , GLY A:161 , MET A:162 , ASN A:325 , LEU A:326 , GLY A:329 , ALA A:330 , 2RA A:367 , HOH A:373 , HOH A:485 , HOH A:530
BINDING SITE FOR RESIDUE NAP A 368
04
AC4
SOFTWARE
GLY B:9 , THR B:11 , GLY B:12 , ALA B:13 , VAL B:14 , ALA B:36 , SER B:37 , ARG B:39 , SER B:40 , THR B:57 , SER B:71 , ALA B:72 , GLY B:73 , THR B:76 , ASN B:94 , THR B:95 , CYS B:128 , SER B:158 , GLY B:159 , GLY B:161 , MET B:162 , ASN B:325 , LEU B:326 , GLY B:329 , ALA B:330 , 2RA B:367 , HOH B:377 , HOH B:424 , HOH B:458 , HOH B:531 , HOH B:537 , HOH B:579 , HOH B:598 , HOH B:614 , HOH B:618
BINDING SITE FOR RESIDUE NAP B 368
05
AC5
SOFTWARE
ALA A:274 , PHE A:276 , ALA A:279 , HOH A:483 , GLU B:343
BINDING SITE FOR RESIDUE NA A 369
06
AC6
SOFTWARE
THR A:26 , EDO A:370 , GLU B:24 , SER B:25 , TRP B:332 , GLU B:339 , HOH B:470
BINDING SITE FOR RESIDUE EDO B 369
07
AC7
SOFTWARE
GLU A:24 , SER A:25 , TRP A:332 , GLU A:339 , HOH A:377 , THR B:26 , EDO B:369
BINDING SITE FOR RESIDUE EDO A 370
08
AC8
SOFTWARE
SER A:250 , GLY A:298 , ASP A:324 , LEU A:326 , HOH A:533
BINDING SITE FOR RESIDUE EDO A 371
09
AC9
SOFTWARE
SER B:250 , GLY B:298 , ASP B:324 , LEU B:326 , HOH B:489
BINDING SITE FOR RESIDUE EDO B 370
10
BC1
SOFTWARE
ASP A:312 , HOH A:503 , LYS B:229
BINDING SITE FOR RESIDUE EDO B 371
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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
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Note:
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_d3pzba2 (A:128-329)
1b: SCOP_d3pzbb2 (B:128-329)
2a: SCOP_d3pzba1 (A:2-127,A:330-358)
2b: SCOP_d3pzbb1 (B:2-127,B:330-360)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
d3pzba2
A:128-329
1b
d3pzbb2
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
d3pzba1
A:2-127,A:330-358
2b
d3pzbb1
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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