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2HDU
Biol. Unit 2
Info
Asym.Unit (284 KB)
Biol.Unit 1 (140 KB)
Biol.Unit 2 (143 KB)
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(1)
Title
:
AMPC BETA-LACTAMASE IN COMPLEX WITH 2-ACETAMIDOTHIOPHENE-3-CARBOXYLIC ACID
Authors
:
K. Babaoglu, B. K. Shoichet
Date
:
20 Jun 06 (Deposition) - 07 Nov 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.49
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Ampc Beta-Lactamase Fragment-Based Drug Design, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Babaoglu, B. K. Shoichet
Deconstructing Fragment-Based Inhibitor Discovery
Nat. Chem. Biol. V. 2 720 2006
(for further references see the
PDB file header
)
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Hetero Components
(2, 7)
Info
All Hetero Components
1a: 2-(ACETYLAMINO)THIOPHENE-3-CARBOXY... (F12a)
1b: 2-(ACETYLAMINO)THIOPHENE-3-CARBOXY... (F12b)
1c: 2-(ACETYLAMINO)THIOPHENE-3-CARBOXY... (F12c)
1d: 2-(ACETYLAMINO)THIOPHENE-3-CARBOXY... (F12d)
1e: 2-(ACETYLAMINO)THIOPHENE-3-CARBOXY... (F12e)
1f: 2-(ACETYLAMINO)THIOPHENE-3-CARBOXY... (F12f)
1g: 2-(ACETYLAMINO)THIOPHENE-3-CARBOXY... (F12g)
1h: 2-(ACETYLAMINO)THIOPHENE-3-CARBOXY... (F12h)
2a: POTASSIUM ION (Ka)
3a: PHOSPHATE ION (PO4a)
View:
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Label:
No.
Name
Count
Type
Full Name
1
F12
6
Ligand/Ion
2-(ACETYLAMINO)THIOPHENE-3-CARBOXYLIC ACID
2
K
-1
Ligand/Ion
POTASSIUM ION
3
PO4
1
Ligand/Ion
PHOSPHATE ION
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
9: AC9 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PRO A:303 , PRO B:303 , HOH B:2256
BINDING SITE FOR RESIDUE K B 2001
2
AC2
SOFTWARE
ARG A:133 , HIS A:186 , HOH A:1213 , HOH A:1245 , HOH A:1378 , HOH A:1423 , HOH A:1428 , HOH A:1441 , LYS B:290 , HOH B:2197
BINDING SITE FOR RESIDUE PO4 B 2002
3
AC3
SOFTWARE
SER B:64 , GLN B:120 , ASN B:152 , TYR B:221 , GLY B:317 , ALA B:318 , F12 B:1006 , HOH B:2028 , HOH B:2111 , HOH B:2117 , HOH B:2343
BINDING SITE FOR RESIDUE F12 B 1001
4
AC4
SOFTWARE
GLN A:250 , GLN A:253 , LEU A:254 , SER A:257 , PRO A:304 , PRO A:306 , HOH A:1413 , HOH A:1473 , GLN B:250 , LEU B:254 , SER B:257 , PRO B:304 , PRO B:306 , HOH B:2101 , HOH B:2483 , HOH B:2484
BINDING SITE FOR RESIDUE F12 B 1002
5
AC5
SOFTWARE
GLN A:56 , HOH A:1025 , LEU B:119 , LEU B:293 , F12 B:1006 , HOH B:2118 , HOH B:2128 , HOH B:2138
BINDING SITE FOR RESIDUE F12 B 1003
6
AC6
SOFTWARE
THR A:262 , GLY A:263 , PRO A:297 , VAL A:298 , LYS A:299 , HOH A:1235 , HOH A:1255 , TYR B:45 , LYS B:51
BINDING SITE FOR RESIDUE F12 A 1004
7
AC7
SOFTWARE
HOH A:1329 , SER B:282 , ASN B:285 , GLY B:286 , ILE B:291 , ARG B:296 , HOH B:2141 , HOH B:2265 , HOH B:2319
BINDING SITE FOR RESIDUE F12 B 1005
8
AC8
SOFTWARE
GLN B:120 , ASN B:289 , LEU B:293 , THR B:319 , ASN B:343 , F12 B:1001 , F12 B:1003 , HOH B:2331
BINDING SITE FOR RESIDUE F12 B 1006
9
AC9
SOFTWARE
PRO A:118 , PHE A:134 , TRP A:138 , GLN A:139 , HOH A:1038 , HOH A:1174 , HIS B:13 , ARG B:14 , HOH B:2082 , HOH B:2166 , HOH B:2183 , HOH B:2263 , HOH B:2283 , HOH B:2418
BINDING SITE FOR RESIDUE F12 B 1008
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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 (B: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
-
B:60-67
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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.
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2hdua_ (A:)
1b: SCOP_d2hdub_ (B:)
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)
(
)
Protein Domains
(
)
(
)
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
d2hdua_
A:
1b
d2hdub_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2hduA00 (A:4-361)
1b: CATH_2hduB00 (B:4-361)
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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: k-12.
(4)
1a
2hduA00
A:4-361
1b
2hduB00
B:4-361
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Pfam Domains
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Chain B
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (284 KB)
Header - Asym.Unit
Biol.Unit 1 (140 KB)
Header - Biol.Unit 1
Biol.Unit 2 (143 KB)
Header - Biol.Unit 2
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