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1RGY
Asym. Unit
Info
Asym.Unit (71 KB)
Biol.Unit 1 (68 KB)
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(1)
Title
:
CITROBACTER FREUNDII GN346 CLASS C BETA-LACTAMASE COMPLEXED WITH TRANSITION-STATE ANALOG OF CEFOTAXIME
Authors
:
M. Nukaga, S. Kumar, K. Nukaga, R. F. Pratt, J. R. Knox
Date
:
13 Nov 03 (Deposition) - 06 Apr 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.52
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Hydrolase, Cephalosporinase, Enzyme Inhibition, Phosphonate, Beta-Lactam Antibiotics, Drug Design
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Nukaga, S. Kumar, K. Nukaga, R. F. Pratt, J. R. Knox
Hydrolysis Of Third-Generation Cephalosporins By Class C Beta-Lactamases. Structures Of A Transition State Analog Of Cefotoxamine In Wild-Type And Extended Spectrum Enzymes.
J. Biol. Chem. V. 279 9344 2004
(for further references see the
PDB file header
)
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
2a: {[(2E)-2-(2-AMINO-1,3-THIAZOL-4-YL... (PTXa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
MPD
1
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
2
PTX
1
Ligand/Ion
{[(2E)-2-(2-AMINO-1,3-THIAZOL-4-YL)-2-(METHOXYIMINO)ETHANOYL]AMINO}METHYLPHOSPHONIC ACID
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:64 , GLN A:120 , TYR A:150 , ASN A:152 , VAL A:211 , TYR A:221 , GLY A:317 , SER A:318 , THR A:319 , GLY A:320 , HOH A:565 , HOH A:585 , HOH A:596 , HOH A:622
BINDING SITE FOR RESIDUE PTX A 400
2
AC2
SOFTWARE
GLN A:120 , HOH A:910
BINDING SITE FOR RESIDUE MPD A 410
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SAPs(SNPs)/Variants
(9, 9)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_AMPC_CITFR_001 (A77A, chain A, )
2: VAR_AMPC_CITFR_002 (D123D, chain A, )
3: VAR_AMPC_CITFR_003 (I125I, chain A, )
4: VAR_AMPC_CITFR_004 (A130A, chain A, )
5: VAR_AMPC_CITFR_005 (P165P, chain A, )
6: VAR_AMPC_CITFR_006 (R204R, chain A, )
7: VAR_AMPC_CITFR_007 (V223L, chain A, )
8: VAR_AMPC_CITFR_008 (V305V, chain A, )
9: VAR_AMPC_CITFR_009 (V348V, chain A, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_AMPC_CITFR_001
*
R
97
A
AMPC_CITFR
---
---
A
A
77
A
2
UniProt
VAR_AMPC_CITFR_002
*
G
143
D
AMPC_CITFR
---
---
A
D
123
D
3
UniProt
VAR_AMPC_CITFR_003
*
V
145
I
AMPC_CITFR
---
---
A
I
125
I
4
UniProt
VAR_AMPC_CITFR_004
*
E
150
A
AMPC_CITFR
---
---
A
A
130
A
5
UniProt
VAR_AMPC_CITFR_005
*
S
185
P
AMPC_CITFR
---
---
A
P
165
P
6
UniProt
VAR_AMPC_CITFR_006
*
L
224
R
AMPC_CITFR
---
---
A
R
204
R
7
UniProt
VAR_AMPC_CITFR_007
*
V
243
L
AMPC_CITFR
---
---
A
V
223
L
8
UniProt
VAR_AMPC_CITFR_008
*
A
325
V
AMPC_CITFR
---
---
A
V
305
V
9
UniProt
VAR_AMPC_CITFR_009
*
A
368
V
AMPC_CITFR
---
---
A
V
348
V
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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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_CITFR
80-87
1
A: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.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1rgya_ (A:)
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(
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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)
Citrobacter freundii [TaxId: 546]
(3)
1a
d1rgya_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1rgyA00 (A:2-361)
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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)
Citrobacter freundii. Organism_taxid: 546.
(1)
1a
1rgyA00
A:2-361
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Beta_lactamase_1rgyA01 (A:12-361)
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Clan
:
Beta-lactamase
(210)
Family
:
Beta-lactamase
(79)
Citrobacter freundii
(1)
1a
Beta-lactamase-1rgyA01
A:12-361
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Asymmetric Unit 1
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