3T9M | pdb_00003t9m

Crystal structure of Mutant C221D of Carbapenemase CphA from Aeromonas Hydrophila

PDB DOI: https://doi.org/10.2210/pdb3T9M/pdb

Classification: HYDROLASE
Organism(s): Aeromonas hydrophila
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2011-08-03 Released: 2012-08-08
Deposition Author(s): Delbruck, H., Hoffmann, K.M.V.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.03 Å
R-Value Free:
0.223 (Depositor), 0.251 (DCC)
R-Value Work:
0.179 (Depositor), 0.211 (DCC)
R-Value Observed:
0.181 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of Mutant C221D of Carbapenemase CphA from Aeromonas Hydrophila

Delbruck, H., Bebrone, C., Hoffmann, K.M.V., Galleni, M.

To be published.

Macromolecule Content

Total Structure Weight: 25.35 kDa
Atom Count: 1,822
Modeled Residue Count: 206
Deposited Residue Count: 227
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-lactamase	A	227	Aeromonas hydrophila	Mutation(s): 1 Gene Names: cphA EC: 3.5.2.6
UniProt
Find proteins for P26918 (Aeromonas hydrophila) Explore P26918 Go to UniProtKB: P26918
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P26918
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ACT Query on ACT Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.03 Å
R-Value Free: 0.223 (Depositor), 0.251 (DCC)
R-Value Work: 0.179 (Depositor), 0.211 (DCC)
R-Value Observed: 0.181 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.605	α = 90
b = 64.639	β = 90
c = 67.14	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
PHASER	phasing
REFMAC	refinement
XDS	data reduction
SCALA	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2012-08-08

Deposition Author(s):

Hoffmann, K.M.V.

Revision History (Full details and data files)

Version 1.0: 2012-08-08
Type: Initial release
Version 1.1: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.