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2ODO
Asym. Unit
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Asym.Unit (224 KB)
Biol.Unit 1 (112 KB)
Biol.Unit 2 (111 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PSEUDOMONAS FLUORESCENS ALANINE RACEMASE
Authors
:
H. Tsuge, K. Ohnishi, K. Yokoigawa
Date
:
25 Dec 06 (Deposition) - 05 Feb 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Alanine Racemase, Plp, Isomerase
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Reference
:
H. Tsuge, K. Ohnishi, K. Yokoigawa
Crystal Structure Of Pseudomonas Fluorescens Alanine Racemase
To Be Published
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Hetero Components
(3, 12)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
2a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
2b: LYSINE NZ-CARBOXYLIC ACID (KCXb)
2c: LYSINE NZ-CARBOXYLIC ACID (KCXc)
2d: LYSINE NZ-CARBOXYLIC ACID (KCXd)
3a: 2-LYSINE(3-HYDROXY-2-METHYL-5-PHOS... (LLPa)
3b: 2-LYSINE(3-HYDROXY-2-METHYL-5-PHOS... (LLPb)
3c: 2-LYSINE(3-HYDROXY-2-METHYL-5-PHOS... (LLPc)
3d: 2-LYSINE(3-HYDROXY-2-METHYL-5-PHOS... (LLPd)
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No.
Name
Count
Type
Full Name
1
ACT
4
Ligand/Ion
ACETATE ION
2
KCX
4
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
3
LLP
4
Mod. Amino Acid
2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:253 , TYR A:272 , SER A:300 , MET A:301 , LLP B:33 , ARG B:129
BINDING SITE FOR RESIDUE ACT A 1400
2
AC2
SOFTWARE
LLP A:33 , ARG A:129 , TYR B:253 , TYR B:272 , SER B:300 , MET B:301 , HOH B:403
BINDING SITE FOR RESIDUE ACT B 400
3
AC3
SOFTWARE
TYR C:253 , TYR C:272 , SER C:300 , MET C:301 , LLP D:33 , ARG D:129
BINDING SITE FOR RESIDUE ACT C 3400
4
AC4
SOFTWARE
ARG C:129 , TYR D:253 , TYR D:272 , MET D:301
BINDING SITE FOR RESIDUE ACT D 2400
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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
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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
(0, 0)
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_2odoA02 (A:10-216)
1b: CATH_2odoB02 (B:10-216)
1c: CATH_2odoC02 (C:10-216)
1d: CATH_2odoD02 (D:10-216)
2a: CATH_2odoA01 (A:1-9,A:217-356)
2b: CATH_2odoB01 (B:1-9,B:217-356)
2c: CATH_2odoC01 (C:1-9,C:217-356)
2d: CATH_2odoD01 (D:1-9,D:217-356)
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Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Alanine racemase
(53)
Pseudomonas fluorescens. Organism_taxid: 294. Strain: tm5-2.
(1)
1a
2odoA02
A:10-216
1b
2odoB02
B:10-216
1c
2odoC02
C:10-216
1d
2odoD02
D:10-216
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)
Pseudomonas fluorescens. Organism_taxid: 294. Strain: tm5-2.
(1)
2a
2odoA01
A:1-9,A:217-356
2b
2odoB01
B:1-9,B:217-356
2c
2odoC01
C:1-9,C:217-356
2d
2odoD01
D:1-9,D:217-356
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Ala_racemase_N_2odoD01 (D:8-218)
1b: PFAM_Ala_racemase_N_2odoD02 (D:8-218)
1c: PFAM_Ala_racemase_N_2odoD03 (D:8-218)
1d: PFAM_Ala_racemase_N_2odoD04 (D:8-218)
2a: PFAM_Ala_racemase_C_2odoD05 (D:232-355)
2b: PFAM_Ala_racemase_C_2odoD06 (D:232-355)
2c: PFAM_Ala_racemase_C_2odoD07 (D:232-355)
2d: PFAM_Ala_racemase_C_2odoD08 (D:232-355)
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Clan
:
TIM_barrel
(694)
Family
:
Ala_racemase_N
(19)
Pseudomonas fluorescens
(1)
1a
Ala_racemase_N-2odoD01
D:8-218
1b
Ala_racemase_N-2odoD02
D:8-218
1c
Ala_racemase_N-2odoD03
D:8-218
1d
Ala_racemase_N-2odoD04
D:8-218
Clan
:
no clan defined [family: Ala_racemase_C]
(18)
Family
:
Ala_racemase_C
(18)
Pseudomonas fluorescens
(1)
2a
Ala_racemase_C-2odoD05
D:232-355
2b
Ala_racemase_C-2odoD06
D:232-355
2c
Ala_racemase_C-2odoD07
D:232-355
2d
Ala_racemase_C-2odoD08
D:232-355
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