6NJK

Crystal structure of beta-lactamase from Sulfitobacter sp. EE-36

PDB DOI: https://doi.org/10.2210/pdb6NJK/pdb

Classification: HYDROLASE
Organism(s): Sulfitobacter sp. EE-36
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2019-01-03 Released: 2019-01-16
Deposition Author(s): Michalska, K., Tesar, C., Endres, M., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.177
R-Value Work: 0.143
R-Value Observed: 0.143

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of beta-lactamase from Sulfitobacter sp. EE-36

Michalska, K., Tesar, C., Endres, M., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Macromolecule Content

Total Structure Weight: 79.44 kDa
Atom Count: 6,055
Modelled Residue Count: 725
Deposited Residue Count: 734
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
beta-lactamase	A, B	367	Sulfitobacter sp. EE-36	Mutation(s): 0 Gene Names: EE36_13938
UniProt
Find proteins for A0A4V8H037 (Sulfitobacter sp. EE-36) Explore A0A4V8H037 Go to UniProtKB: A0A4V8H037
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A4V8H037
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] MOL2 format, chain C [auth A]	C [auth A]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.177
R-Value Work: 0.143
R-Value Observed: 0.143
Space Group: P 1 2₁ 1
Diffraction Data: https://doi.org/10.18430/m36njk

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.694	α = 90
b = 107.39	β = 91.77
c = 59.457	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2019-01-16

Deposition Author(s):

Center for Structural Genomics of Infectious Diseases (CSGID)

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	HHSN272201700060C

Revision History (Full details and data files)

Version 1.0: 2019-01-16
Type: Initial release
Version 1.1: 2019-12-18
Changes: Author supporting evidence

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.