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2WKJ
Asym. Unit
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Asym.Unit (224 KB)
Biol.Unit 1 (212 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE E192N MUTANT OF E.COLI N-ACETYLNEURAMINIC ACID LYASE IN COMPLEX WITH PYRUVATE AT 1.45A RESOLUTION IN SPACE GROUP P212121
Authors
:
I. Campeotto, S. B. Carr, C. H. Trinh, A. S. Nelson, A. Berry, S. E. V. Phil A. R. Pearson
Date
:
11 Jun 09 (Deposition) - 01 Dec 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.45
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Directed Evolution, Sialic Acid Mimetics, Lyase, Aldolase, Schiff Base, Carbohydrate Metabolism, N-Acetylneuraminic Acid Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
I. Campeotto, S. B. Carr, C. H. Trinh, A. S. Nelson, A. Berry, S. E. V. Phillips, A. R. Pearson
Structure Of An Escherichia Coli N-Acetyl-D- Neuraminic Acid Lyase Mutant, E192N, In Complex With Pyruvate At 1. 45 A Resolution.
Acta Crystallogr. , Sect. F V. 65 1088 2009
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Hetero Components
(3, 8)
Info
All Hetero Components
1a: PENTAETHYLENE GLYCOL (1PEa)
1b: PENTAETHYLENE GLYCOL (1PEb)
2a: (2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-P... (KPIa)
2b: (2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-P... (KPIb)
2c: (2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-P... (KPIc)
2d: (2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-P... (KPId)
3a: PYRUVIC ACID (PYRa)
3b: PYRUVIC ACID (PYRb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1PE
2
Ligand/Ion
PENTAETHYLENE GLYCOL
2
KPI
4
Mod. Amino Acid
(2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-PROPAN-2-YLIDENE)AMINO]HEXANOIC ACID
3
PYR
2
Ligand/Ion
PYRUVIC ACID
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LEU A:282 , PRO A:283 , LYS A:286 , GLN C:36 , GLN C:37 , GLY C:38
BINDING SITE FOR RESIDUE 1PE A1297
2
AC2
SOFTWARE
GLY C:189 , TYR C:190 , ASP C:191 , ASN C:192 , SER C:208 , THR C:209 , HOH C:2339 , HOH C:2340
BINDING SITE FOR RESIDUE PYR C1298
3
AC3
SOFTWARE
GLY D:189 , TYR D:190 , ASP D:191 , ASN D:192 , ILE D:243 , HOH D:2274 , HOH D:2275
BINDING SITE FOR RESIDUE PYR D1297
4
AC4
SOFTWARE
TYR A:261 , PRO A:283 , LYS A:286 , GLN C:36 , GLN C:37 , GLY C:38
BINDING SITE FOR CHAIN C OF RESIDUES 1297 TO 1297
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: DHDPS_1 (A:41-58,B:41-58,C:41-58,D:41-58)
2: DHDPS_2 (A:137-167,B:137-167,C:137-167,D:13...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DHDPS_1
PS00665
Dihydrodipicolinate synthase signature 1.
NANA_ECOLI
41-58
4
A:41-58
B:41-58
C:41-58
D:41-58
2
DHDPS_2
PS00666
Dihydrodipicolinate synthase signature 2.
NANA_ECOLI
137-167
4
A:137-167
B:137-167
C:137-167
D:137-167
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2wkja_ (A:)
1b: SCOP_d2wkjb_ (B:)
1c: SCOP_d2wkjc_ (C:)
1d: SCOP_d2wkjd_ (D:)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Aldolase
(457)
Family
:
Class I aldolase
(182)
Protein domain
:
automated matches
(54)
Escherichia coli [TaxId: 562]
(6)
1a
d2wkja_
A:
1b
d2wkjb_
B:
1c
d2wkjc_
C:
1d
d2wkjd_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2wkjA00 (A:-1-296)
1b: CATH_2wkjB00 (B:-1-296)
1c: CATH_2wkjC00 (C:-1-296)
1d: CATH_2wkjD00 (D:-1-296)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Escherichia coli. Organism_taxid: 562.
(44)
1a
2wkjA00
A:-1-296
1b
2wkjB00
B:-1-296
1c
2wkjC00
C:-1-296
1d
2wkjD00
D:-1-296
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_DHDPS_2wkjD01 (D:4-293)
1b: PFAM_DHDPS_2wkjD02 (D:4-293)
1c: PFAM_DHDPS_2wkjD03 (D:4-293)
1d: PFAM_DHDPS_2wkjD04 (D:4-293)
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Clan
:
TIM_barrel
(694)
Family
:
DHDPS
(40)
Escherichia coli (strain K12)
(27)
1a
DHDPS-2wkjD01
D:4-293
1b
DHDPS-2wkjD02
D:4-293
1c
DHDPS-2wkjD03
D:4-293
1d
DHDPS-2wkjD04
D:4-293
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Asymmetric Unit 1
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