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3DR4
Biol. Unit 2
Info
Asym.Unit (266 KB)
Biol.Unit 1 (129 KB)
Biol.Unit 2 (134 KB)
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(1)
Title
:
GDP-PEROSAMINE SYNTHASE K186A MUTANT FROM CAULOBACTER CRESCENTUS WITH BOUND SUGAR LIGAND
Authors
:
H. M. Holden, P. D. Cook, A. E. Carney
Date
:
10 Jul 08 (Deposition) - 14 Oct 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Perosamine, Deoxysugar, Pyridoxal Phosphate, Aspartate Aminotransferase, O-Antigen
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. D. Cook, A. E. Carney, H. M. Holden
Accommodation Of Gdp-Linked Sugars In The Active Site Of Gdp-Perosamine Synthase
Biochemistry V. 47 10685 2008
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
2a: [(2R,3S,4R,5R)-5-(2-AMINO-6-OXO-1,... (G4Ma)
2b: [(2R,3S,4R,5R)-5-(2-AMINO-6-OXO-1,... (G4Mb)
2c: [(2R,3S,4R,5R)-5-(2-AMINO-6-OXO-1,... (G4Mc)
2d: [(2R,3S,4R,5R)-5-(2-AMINO-6-OXO-1,... (G4Md)
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No.
Name
Count
Type
Full Name
1
EDO
-1
Ligand/Ion
1,2-ETHANEDIOL
2
G4M
2
Ligand/Ion
[(2R,3S,4R,5R)-5-(2-AMINO-6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL (2R,3S,4S,5S,6R)-3,4-DIHYDROXY-5-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)AMINO]-6-METHYLTETRAHYDRO-2H-PYRAN-2-YL DIHYDROGEN DIPHOSPHATE
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Sites
(2, 2)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
ALA C:10 , PRO C:12 , ASN C:59 , GLY C:60 , THR C:61 , TYR C:86 , ASP C:157 , ALA C:159 , GLU C:160 , SER C:181 , PHE C:183 , GLY C:184 , ASN C:185 , GLU C:313 , ARG C:315 , THR D:29 , TRP D:30 , ILE D:31 , SER D:32 , ARG D:220 , TYR D:221 , ASN D:229
BINDING SITE FOR RESIDUE G4M C 500
2
AC4
SOFTWARE
THR C:29 , TRP C:30 , ILE C:31 , SER C:32 , ARG C:220 , TYR C:221 , ASN C:229 , ALA D:10 , PRO D:12 , ASN D:59 , GLY D:60 , THR D:61 , TYR D:86 , ASP D:157 , ALA D:159 , GLU D:160 , SER D:181 , PHE D:183 , GLY D:184 , ASN D:185 , GLU D:313 , ARG D:315
BINDING SITE FOR RESIDUE G4M D 500
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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
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3dr4a_ (A:)
1b: SCOP_d3dr4b_ (B:)
1c: SCOP_d3dr4c_ (C:)
1d: SCOP_d3dr4d_ (D:)
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Protein Domains
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(
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Organisms
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(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PLP-dependent transferase-like
(627)
Superfamily
:
PLP-dependent transferases
(625)
Family
:
automated matches
(163)
Protein domain
:
automated matches
(163)
Caulobacter crescentus [TaxId: 190650]
(3)
1a
d3dr4a_
A:
1b
d3dr4b_
B:
1c
d3dr4c_
C:
1d
d3dr4d_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_3dr4C01 (C:4-103,C:110-246)
1b: CATH_3dr4D01 (D:5-103,D:110-246)
1c: CATH_3dr4B01 (B:6-103,B:110-246)
1d: CATH_3dr4A01 (A:8-103,A:110-246)
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Organisms
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)
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)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aspartate Aminotransferase; domain 2
(384)
Homologous Superfamily
:
Type I PLP-dependent aspartate aminotransferase-like (Major domain)
(384)
Caulobacter crescentus. Strain: cb15.
(2)
1a
3dr4C01
C:4-103,C:110-246
1b
3dr4D01
D:5-103,D:110-246
1c
3dr4B01
B:6-103,B:110-246
1d
3dr4A01
A:8-103,A:110-246
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (266 KB)
Header - Asym.Unit
Biol.Unit 1 (129 KB)
Header - Biol.Unit 1
Biol.Unit 2 (134 KB)
Header - Biol.Unit 2
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