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3B8T
Biol. Unit 1
Info
Asym.Unit (236 KB)
Biol.Unit 1 (119 KB)
Biol.Unit 2 (115 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ESCHERICHIA COLI ALAINE RACEMASE MUTANT P219A
Authors
:
D. Wu, T. Hu, L. Zhang, H. Jiang, X. Shen
Date
:
02 Nov 07 (Deposition) - 08 Jul 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Alpha/Beta Barrel, Cell Shape, Cell Wall Biogenesis/Degradation, Isomerase, Peptidoglycan Synthesis, Pyridoxal Phosphate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Wu, T. Hu, L. Zhang, J. Chen, J. Du, J. Ding, H. Jiang, X. Shen
Residues Asp164 And Glu165 At The Substrate Entryway Function Potently In Substrate Orientation Of Alanine Racemase From E. Coli: Enzymatic Characterization With Crystal Structure Analysis
Protein Sci. V. 17 1066 2008
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Hetero Components
(3, 9)
Info
All Hetero Components
1a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
1b: LYSINE NZ-CARBOXYLIC ACID (KCXb)
1c: LYSINE NZ-CARBOXYLIC ACID (KCXc)
1d: LYSINE NZ-CARBOXYLIC ACID (KCXd)
2a: PYRIDOXAL-5'-PHOSPHATE (PLPa)
2b: PYRIDOXAL-5'-PHOSPHATE (PLPb)
2c: PYRIDOXAL-5'-PHOSPHATE (PLPc)
2d: PYRIDOXAL-5'-PHOSPHATE (PLPd)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
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No.
Name
Count
Type
Full Name
1
KCX
2
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
2
PLP
2
Ligand/Ion
PYRIDOXAL-5'-PHOSPHATE
3
SO4
5
Ligand/Ion
SULFATE ION
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC7 (SOFTWARE)
6: AC8 (SOFTWARE)
7: AC9 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:19 , ARG B:266
BINDING SITE FOR RESIDUE SO4 A 360
2
AC2
SOFTWARE
ARG A:162
BINDING SITE FOR RESIDUE SO4 A 361
3
AC3
SOFTWARE
ARG A:266 , ARG B:19
BINDING SITE FOR RESIDUE SO4 B 360
4
AC4
SOFTWARE
ARG B:162
BINDING SITE FOR RESIDUE SO4 B 361
5
AC7
SOFTWARE
TYR A:255 , TYR A:274 , ARG A:280
BINDING SITE FOR RESIDUE SO4 A 362
6
AC8
SOFTWARE
LYS A:34 , TYR A:38 , HIS A:159 , ALA A:193 , SER A:194 , ARG A:209 , GLY A:211 , ILE A:212 , TYR A:343
BINDING SITE FOR RESIDUE PLP A 1001
7
AC9
SOFTWARE
LYS B:34 , TYR B:38 , HIS B:159 , ALA B:193 , SER B:194 , ARG B:209 , GLY B:211 , ILE B:212 , TYR B:343
BINDING SITE FOR RESIDUE PLP B 1001
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ALANINE_RACEMASE (A:31-41,B:31-41)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALANINE_RACEMASE
PS00395
Alanine racemase pyridoxal-phosphate attachment site.
ALR1_ECOLI
31-41
2
A:31-41
B:31-41
-
-
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_3b8tA02 (A:10-217)
1b: CATH_3b8tB02 (B:10-217)
1c: CATH_3b8tC02 (C:10-217)
1d: CATH_3b8tD02 (D:10-217)
2a: CATH_3b8tD01 (D:1-9,D:218-359)
2b: CATH_3b8tA01 (A:1-9,A:218-359)
2c: CATH_3b8tB01 (B:1-9,B:218-359)
2d: CATH_3b8tC01 (C:3-9,C:218-359)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Alanine racemase
(53)
Escherichia coli. Organism_taxid: 83333. Strain: jm109.
(6)
1a
3b8tA02
A:10-217
1b
3b8tB02
B:10-217
1c
3b8tC02
C:10-217
1d
3b8tD02
D:10-217
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Lyase, Ornithine Decarboxylase; Chain A, domain 1
(47)
Homologous Superfamily
:
Lyase, Ornithine Decarboxylase; Chain A, domain 1
(47)
Escherichia coli. Organism_taxid: 83333. Strain: jm109.
(6)
2a
3b8tD01
D:1-9,D:218-359
2b
3b8tA01
A:1-9,A:218-359
2c
3b8tB01
B:1-9,B:218-359
2d
3b8tC01
C:3-9,C:218-359
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Pfam Domains
(0, 0)
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Asym.Unit (236 KB)
Header - Asym.Unit
Biol.Unit 1 (119 KB)
Header - Biol.Unit 1
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