3I41 | pdb_00003i41

Crystal structure of beta toxin from Staphylococcus aureus F277A, P278A mutant

PDB DOI: https://doi.org/10.2210/pdb3I41/pdb

Classification: TOXIN
Organism(s): Staphylococcus aureus subsp. aureus RN4220
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2009-07-01 Released: 2010-07-14
Deposition Author(s): Huseby, M., Shi, K., Kruse, A.C., Ohlendorf, D.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free:
0.260 (Depositor), 0.258 (DCC)
R-Value Work:
0.201 (Depositor), 0.200 (DCC)
R-Value Observed:
0.204 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 3I41

This is version 1.5 of the entry. See complete history.

Literature

Structure and biological functions of beta toxin from Staphylococcus aureus: Role of the hydrophobic beta hairpin in virulence

Huseby, M., Shi, K., Kruse, A.C., Digre, J., Mengistu, F., Bohach, G.A., Schlievert, P.S., Ohlendorf, D.H., Earhart, C.A.

To be published.

Macromolecule Content

Total Structure Weight: 72.18 kDa
Atom Count: 5,192
Modeled Residue Count: 580
Deposited Residue Count: 634
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-hemolysin	A, B	317	Staphylococcus aureus subsp. aureus RN4220	Mutation(s): 2 Gene Names: hlb
UniProt
Find proteins for A7LAI8 (Staphylococcus aureus) Explore A7LAI8 Go to UniProtKB: A7LAI8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A7LAI8
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free: 0.260 (Depositor), 0.258 (DCC)
R-Value Work: 0.201 (Depositor), 0.200 (DCC)
R-Value Observed: 0.204 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.176	α = 90
b = 68.668	β = 90
c = 127.842	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection
HKL-3000	data reduction
AMoRE	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2010-07-14

Deposition Author(s):

Ohlendorf, D.H.

Revision History (Full details and data files)

Version 1.0: 2010-07-14
Type: Initial release
Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.2: 2017-11-01
Changes: Refinement description
Version 1.3: 2021-10-13
Changes: Database references
Version 1.4: 2024-04-03
Changes: Data collection, Refinement description
Version 1.5: 2024-11-20
Changes: Structure summary

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.