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4BWL
Asym. Unit
Info
Asym.Unit (192 KB)
Biol.Unit 1 (186 KB)
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(1)
Title
:
STRUCTURE OF THE Y137A MUTANT OF E. COLI N-ACETYLNEURAMINIC ACID LYASE IN COMPLEX WITH PYRUVATE, N-ACETYL-D-MANNOSAMINE AND N-ACETYLNEURAMINIC ACID
Authors
:
I. Campeotto, S. E. V. Phillips, A. R. Pearson, A. Nelson, A. Berry
Date
:
03 Jul 13 (Deposition) - 19 Feb 14 (Release) - 30 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Lyase, Directed Evolution, Substrate Specificity, Protein Engineering
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
A. D. Daniels, I. Campeotto, M. W. Van Der Kamp, A. H. Bolt, C. H. Trinh S. E. V. Phillips, A. R. Pearson, A. Nelson, A. J. Mulholland, A. Berry
The Reaction Mechanism Of N-Acetylneuraminic Acid Lyase Revealed By A Combination Of Crystallography, Qm/Mm Simulation And Mutagenesis.
Acs Chem. Biol. V. 9 1025 2014
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Hetero Components
(4, 7)
Info
All Hetero Components
1a: PENTAETHYLENE GLYCOL (1PEa)
1b: PENTAETHYLENE GLYCOL (1PEb)
2a: (2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-P... (KPIa)
3a: 2-(ACETYLAMINO)-2-DEOXY-D-MANNOSE (MN9a)
4a: 5-(ACETYLAMINO)-3,5-DIDEOXY-D-GLYC... (SI3a)
4b: 5-(ACETYLAMINO)-3,5-DIDEOXY-D-GLYC... (SI3b)
4c: 5-(ACETYLAMINO)-3,5-DIDEOXY-D-GLYC... (SI3c)
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No.
Name
Count
Type
Full Name
1
1PE
2
Ligand/Ion
PENTAETHYLENE GLYCOL
2
KPI
1
Mod. Amino Acid
(2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-PROPAN-2-YLIDENE)AMINO]HEXANOIC ACID
3
MN9
1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-D-MANNOSE
4
SI3
3
Ligand/Ion
5-(ACETYLAMINO)-3,5-DIDEOXY-D-GLYCERO-D-GALACTO-NON-2-ULOSONIC ACID
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:47 , THR A:48 , ILE A:139 , LYS A:165 , THR A:167 , GLY A:189 , TYR A:190 , ASP A:191 , GLU A:192 , GLY A:207 , SER A:208 , PHE A:252 , HOH A:2003
BINDING SITE FOR RESIDUE SI3 A1165
2
AC2
SOFTWARE
TYR B:43 , GLY B:46 , SER B:47 , THR B:48 , LYS B:165 , THR B:167 , GLY B:189 , ASP B:191 , GLU B:192 , GLY B:207 , SER B:208 , PHE B:252 , HOH B:2004 , HOH B:2021
BINDING SITE FOR RESIDUE SI3 B1165
3
AC3
SOFTWARE
TYR D:43 , SER D:47 , THR D:48 , LYS D:165 , THR D:167 , GLY D:189 , TYR D:190 , ASP D:191 , GLU D:192 , ILE D:206 , GLY D:207 , SER D:208 , PHE D:252 , HOH D:2009
BINDING SITE FOR RESIDUE SI3 D1165
4
AC4
SOFTWARE
ILE C:139 , LEU C:142 , KPI C:165 , THR C:167 , GLY C:189 , ASP C:191 , GLU C:192 , GLY C:207 , SER C:208 , PHE C:252
BINDING SITE FOR RESIDUE MN9 C1297
5
AC5
SOFTWARE
ASP B:170 , HOH B:2014
BINDING SITE FOR RESIDUE 1PE B1297
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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:138-167,B:138-167,C:138-167,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:138-167
B:138-167
C:138-167
D:138-167
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Exons
(0, 0)
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d4bwla_ (A:)
1b: SCOP_d4bwlb_ (B:)
1c: SCOP_d4bwlc_ (C:)
1d: SCOP_d4bwld_ (D:)
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Aldolase
(457)
Family
:
automated matches
(113)
Protein domain
:
automated matches
(113)
Escherichia coli [TaxId: 562]
(3)
1a
d4bwla_
A:
1b
d4bwlb_
B:
1c
d4bwlc_
C:
1d
d4bwld_
D:
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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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Asym.Unit (192 KB)
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