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1RCQ
Asym. Unit
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Asym.Unit (121 KB)
Biol.Unit 1 (231 KB)
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(1)
Title
:
THE 1.45 A CRYSTAL STRUCTURE OF ALANINE RACEMASE FROM A PATHOGENIC BACTERIUM, PSEUDOMONAS AERUGINOSA, CONTAINS BOTH INTERNAL AND EXTERNAL ALDIMINE FORMS
Authors
:
P. Le Magueres, H. Im, A. Dvorak, U. Strych, M. Benedik, K. L. Krause
Date
:
04 Nov 03 (Deposition) - 01 Jun 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.45
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Keywords
:
Alpha-Beta Barrel, Beta-Structure For C-Terminal Domain, Internal/External Aldimine Forms, Isomerase
(Keyword Search:
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)
Reference
:
P. Lemagueres, H. Im, A. Dvorak, U. Strych, M. Benedik, K. L. Krause
Crystal Structure At 1. 45 A Resolution Of Alanine Racemase From A Pathogenic Bacterium, Pseudomonas Aeruginosa, Contains Both Internal And External Aldimine Forms.
Biochemistry V. 42 14752 2003
(for further references see the
PDB file header
)
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: D-LYSINE (DLYa)
2a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
3a: PYRIDOXAL-5'-PHOSPHATE (PLPa)
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No.
Name
Count
Type
Full Name
1
DLY
1
Ligand/Ion
D-LYSINE
2
KCX
1
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
3
PLP
1
Ligand/Ion
PYRIDOXAL-5'-PHOSPHATE
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:31 , LYS A:33 , TYR A:37 , KCX A:122 , ARG A:129 , HIS A:158 , ASN A:192 , SER A:193 , PRO A:194 , ARG A:208 , GLY A:210 , ILE A:211 , TYR A:341 , DLY A:359 , HOH A:531 , HOH A:603
BINDING SITE FOR RESIDUE PLP A 358
2
AC2
SOFTWARE
LYS A:33 , TYR A:37 , ARG A:129 , TYR A:253 , TYR A:272 , SER A:300 , MET A:301 , ASP A:302 , MET A:303 , TYR A:341 , PLP A:358 , HOH A:518 , HOH A:601 , HOH A:603
BINDING SITE FOR RESIDUE DLY A 359
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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
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ALANINE_RACEMASE (A:30-40)
;
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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.
ALR2_PSEAE
30-40
1
A:30-40
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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
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1rcqa1 (A:1-7,A:234-357)
2a: SCOP_d1rcqa2 (A:8-233)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Domain of alpha and beta subunits of F1 ATP synthase-like
(89)
Superfamily
:
Alanine racemase C-terminal domain-like
(25)
Family
:
Alanine racemase
(12)
Protein domain
:
Alanine racemase
(12)
Pseudomonas aeruginosa [TaxId: 287]
(1)
1a
d1rcqa1
A:1-7,A:234-357
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
PLP-binding barrel
(27)
Family
:
Alanine racemase-like, N-terminal domain
(25)
Protein domain
:
Alanine racemase
(12)
Pseudomonas aeruginosa [TaxId: 287]
(1)
2a
d1rcqa2
A:8-233
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1rcqA02 (A:10-216)
2a: CATH_1rcqA01 (A:1-9,A:217-357)
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)
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)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Alanine racemase
(53)
Pseudomonas aeruginosa. Organism_taxid: 287.
(1)
1a
1rcqA02
A: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 aeruginosa. Organism_taxid: 287.
(1)
2a
1rcqA01
A:1-9,A:217-357
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Ala_racemase_N_1rcqA01 (A:8-218)
2a: PFAM_Ala_racemase_C_1rcqA02 (A:232-355)
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Clans
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Organisms
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Clan
:
TIM_barrel
(694)
Family
:
Ala_racemase_N
(19)
Pseudomonas aeruginosa
(1)
1a
Ala_racemase_N-1rcqA01
A:8-218
Clan
:
no clan defined [family: Ala_racemase_C]
(18)
Family
:
Ala_racemase_C
(18)
Pseudomonas aeruginosa
(1)
2a
Ala_racemase_C-1rcqA02
A:232-355
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Asymmetric Unit 1
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