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1YRR
Biol. Unit 1
Info
Asym.Unit (126 KB)
Biol.Unit 1 (237 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE N-ACETYLGLUCOSAMINE-6-PHOSPHATE DEACETYLASE FROM ESCHERICHIA COLI K12 AT 2.0 A RESOLUTION
Authors
:
F. M. Ferreira, R. Aparicio, G. Mendoza-Hernandez, M. L. Calcagno, G. O
Date
:
04 Feb 05 (Deposition) - 21 Mar 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
(Beta/Alpha)8 Barrel, Beta Sandwich, Hydrolase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. M. Ferreira, G. Mendoza-Hernandez, R. Aparicio, H. Fischer, M. L. Calcagno, G. Oliva
Structural Analysis Of N-Acetylglucosamine-6-Phosphate Deacetylase Apoenzyme From Escherichia Coli.
J. Mol. Biol. V. 359 308 2006
(for further references see the
PDB file header
)
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Hetero Components
(2, 10)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GOL
6
Ligand/Ion
GLYCEROL
2
PO4
4
Ligand/Ion
PHOSPHATE ION
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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
GLN A:59 , GLU A:131 , HIS A:195 , HIS A:216 , ASP A:273 , HOH A:858 , HOH A:860
BINDING SITE FOR RESIDUE PO4 A 501
2
AC2
SOFTWARE
ASN B:61 , GLU B:131 , HIS B:195 , HIS B:216 , ASP B:273 , HOH B:672
BINDING SITE FOR RESIDUE PO4 B 502
3
AC3
SOFTWARE
THR A:225 , GLY A:226 , ARG A:227 , GLU A:228 , TYR B:223
BINDING SITE FOR RESIDUE GOL A 601
4
AC4
SOFTWARE
ASP A:253 , ALA A:255 , ARG A:258 , HIS A:323 , HOH A:862 , HOH A:865 , HOH A:866 , LEU B:200
BINDING SITE FOR RESIDUE GOL A 602
5
AC5
SOFTWARE
LYS A:261 , ARG A:262 , GLY A:265 , HOH A:863 , HOH A:864
BINDING SITE FOR RESIDUE GOL A 603
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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
(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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1yrra1 (A:1-53,A:351-382)
1b: SCOP_d1yrrb1 (B:2-53,B:351-382)
2a: SCOP_d1yrra2 (A:54-350)
2b: SCOP_d1yrrb2 (B:54-350)
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Class
:
All beta proteins
(24004)
Fold
:
Composite domain of metallo-dependent hydrolases
(103)
Superfamily
:
Composite domain of metallo-dependent hydrolases
(103)
Family
:
N-acetylglucosamine-6-phosphate deacetylase, NagA
(6)
Protein domain
:
N-acetylglucosamine-6-phosphate deacetylase, NagA
(6)
Escherichia coli [TaxId: 562]
(4)
1a
d1yrra1
A:1-53,A:351-382
1b
d1yrrb1
B:2-53,B:351-382
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Metallo-dependent hydrolases
(273)
Family
:
N-acetylglucosamine-6-phosphate deacetylase, NagA, catalytic domain
(6)
Protein domain
:
N-acetylglucosamine-6-phosphate deacetylase, NagA, catalytic domain
(6)
Escherichia coli [TaxId: 562]
(4)
2a
d1yrra2
A:54-350
2b
d1yrrb2
B:54-350
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1yrrA02 (A:55-280,A:281-344)
1b: CATH_1yrrB02 (B:55-345)
2a: CATH_1yrrA01 (A:1-54,A:345-382)
2b: CATH_1yrrB01 (B:2-54,B:346-382)
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Organisms
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)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Metal-dependent hydrolases
(190)
Escherichia coli. Organism_taxid: 562.
(27)
1a
1yrrA02
A:55-280,A:281-344
1b
1yrrB02
B:55-345
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Urease, subunit C; domain 1
(95)
Homologous Superfamily
:
Urease, subunit C, domain 1
(95)
Escherichia coli. Organism_taxid: 562.
(12)
2a
1yrrA01
A:1-54,A:345-382
2b
1yrrB01
B:2-54,B:346-382
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Amidohydro_1_1yrrB01 (B:50-364)
1b: PFAM_Amidohydro_1_1yrrB02 (B:50-364)
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Clan
:
Amidohydrolase
(126)
Family
:
Amidohydro_1
(28)
Escherichia coli O157:H7
(1)
1a
Amidohydro_1-1yrrB01
B:50-364
1b
Amidohydro_1-1yrrB02
B:50-364
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Asym.Unit (126 KB)
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