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2R9X
Biol. Unit 1
Info
Asym.Unit (140 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (69 KB)
Biol.Unit 3 (135 KB)
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(1)
Title
:
AMPC BETA-LACTAMASE WITH BOUND PHTHALAMIDE INHIBITOR
Authors
:
K. Babaoglu, B. K. Shoichet
Date
:
13 Sep 07 (Deposition) - 15 Apr 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (1x)
Keywords
:
Ampc Beta-Lactamase, Pthalamide, Antibiotic Resistance, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Babaoglu, A. Simeonov, J. J. Irwin, M. E. Nelson, B. Feng, C. J. Thomas, L. Cancian, M. P. Costi, D. A. Maltby, A. Jadhav, J. Inglese, C. P. Austin, B. K. Shoichet
Comprehensive Mechanistic Analysis Of Hits From High-Throughput And Docking Screens Against Beta-Lactamase.
J. Med. Chem. V. 51 2502 2008
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: DIMETHYL SULFOXIDE (DMSa)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
2d: PHOSPHATE ION (PO4d)
2e: PHOSPHATE ION (PO4e)
2f: PHOSPHATE ION (PO4f)
2g: PHOSPHATE ION (PO4g)
2h: PHOSPHATE ION (PO4h)
2i: PHOSPHATE ION (PO4i)
3a: 2-[(1R)-2-CARBOXY-1-(NAPHTHALEN-1-... (WH6a)
3b: 2-[(1R)-2-CARBOXY-1-(NAPHTHALEN-1-... (WH6b)
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Label:
No.
Name
Count
Type
Full Name
1
DMS
1
Ligand/Ion
DIMETHYL SULFOXIDE
2
PO4
4
Ligand/Ion
PHOSPHATE ION
3
WH6
1
Ligand/Ion
2-[(1R)-2-CARBOXY-1-(NAPHTHALEN-1-YLMETHYL)ETHYL]-1,3-DIOXO-2,3-DIHYDRO-1H-ISOINDOLE-5-CARBOXYLIC ACID
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC4 (SOFTWARE)
4: AC7 (SOFTWARE)
5: AC8 (SOFTWARE)
6: AC9 (SOFTWARE)
7: BC2 (SOFTWARE)
8: BC3 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PHE A:41 , THR A:42 , HOH A:571 , HOH A:590 , GLY B:116 , LEU B:149 , HOH B:784
BINDING SITE FOR RESIDUE PO4 B 1
2
AC2
SOFTWARE
ALA A:307 , ARG A:309 , HOH A:671 , ALA B:79 , ARG B:80 , GLY B:81
BINDING SITE FOR RESIDUE PO4 A 2
3
AC4
SOFTWARE
PRO A:140 , ALA A:141 , TRP A:142 , ALA A:143 , HOH A:492
BINDING SITE FOR RESIDUE PO4 A 362
4
AC7
SOFTWARE
ALA A:79 , ARG A:80 , GLY A:81 , ALA B:307 , ARG B:309 , HOH B:757 , HOH B:835
BINDING SITE FOR RESIDUE PO4 B 364
5
AC8
SOFTWARE
TYR A:45 , ILE A:48 , HOH A:487 , HOH B:814
BINDING SITE FOR RESIDUE PO4 A 363
6
AC9
SOFTWARE
TRP A:93 , LEU A:131 , LEU A:161 , LYS A:164 , HOH A:443
BINDING SITE FOR RESIDUE PO4 A 364
7
BC2
SOFTWARE
SER A:64 , GLN A:120 , ASN A:152 , TYR A:221 , GLY A:317 , ALA A:318 , THR A:319 , GLY A:320 , HOH A:395 , HOH A:409 , HOH A:615 , HOH A:618 , ALA B:4
BINDING SITE FOR RESIDUE WH6 A 365
8
BC3
SOFTWARE
TYR A:150 , ASN A:289 , ALA A:292 , LEU A:293 , LYS A:315 , THR A:316
BINDING SITE FOR RESIDUE DMS A 1
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: BETA_LACTAMASE_C (A:60-67)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
BETA_LACTAMASE_C
PS00336
Beta-lactamase class-C active site.
AMPC_ECOLI
76-83
1
A:60-67
-
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Exons
(0, 0)
Info
All Exons
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2r9xa_ (A:)
1b: SCOP_d2r9xb_ (B:)
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Protein Domains
(
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(
)
Organisms
(
)
(
)
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
beta-lactamase/transpeptidase-like
(515)
Superfamily
:
beta-lactamase/transpeptidase-like
(515)
Family
:
beta-Lactamase/D-ala carboxypeptidase
(411)
Protein domain
:
AMPC beta-Lactamase, class C
(85)
Escherichia coli, cephalosporinase [TaxId: 562]
(73)
1a
d2r9xa_
A:
1b
d2r9xb_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2r9xA00 (A:4-361)
1b: CATH_2r9xB00 (B:4-361)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Beta-lactamase
(339)
Homologous Superfamily
:
DD-peptidase/beta-lactamase superfamily
(335)
Escherichia coli k12. Organism_taxid: 83333. Strain: k12.
(4)
1a
2r9xA00
A:4-361
1b
2r9xB00
B:4-361
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Beta_lactamase_2r9xB01 (B:12-361)
1b: PFAM_Beta_lactamase_2r9xB02 (B:12-361)
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)
Clan
:
Beta-lactamase
(210)
Family
:
Beta-lactamase
(79)
Escherichia coli (strain K12)
(30)
1a
Beta-lactamase-2r9xB01
B:12-361
1b
Beta-lactamase-2r9xB02
B:12-361
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Chain A
Asymmetric Unit 1
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Asym.Unit (140 KB)
Header - Asym.Unit
Biol.Unit 1 (69 KB)
Header - Biol.Unit 1
Biol.Unit 2 (69 KB)
Header - Biol.Unit 2
Biol.Unit 3 (135 KB)
Header - Biol.Unit 3
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