4DAP | pdb_00004dap

The structure of Escherichia coli SfsA

PDB DOI: https://doi.org/10.2210/pdb4DAP/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Escherichia coli K-12
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2012-01-13 Released: 2013-08-14
Deposition Author(s): Baker, P.J., Allen, F.L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free:
0.231 (Depositor), 0.230 (DCC)
R-Value Work:
0.205 (Depositor), 0.206 (DCC)
R-Value Observed:
0.206 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

The structure of SfsA and its DNA complex; A DNA/RNA nuclease with a novel domain combination

Allen, F.L., Akerboom, J., Bliss, S.J., Blombach, F., Sedelnikova, S.E., van der Oost, J., Baker, P.J.

To be published.

Macromolecule Content

Total Structure Weight: 26.28 kDa
Atom Count: 1,979
Modeled Residue Count: 232
Deposited Residue Count: 234
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sugar fermentation stimulation protein A	A	234	Escherichia coli K-12	Mutation(s): 0 Gene Names: sfsA, sfs1, b0146, JW0142
UniProt
Find proteins for P0A823 (Escherichia coli (strain K12)) Explore P0A823 Go to UniProtKB: P0A823
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0A823
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.231 (Depositor), 0.230 (DCC)
R-Value Work: 0.205 (Depositor), 0.206 (DCC)
R-Value Observed: 0.206 (Depositor)

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 117.728	α = 90
b = 117.728	β = 90
c = 77.594	γ = 90

Software Package:

Software Name	Purpose
GDA	data collection
SOLVE	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2013-08-14

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-08-14
Type: Initial release
Version 1.1: 2014-10-15
Changes: Structure summary
Version 1.2: 2024-02-28
Changes: Data collection, Database references, Derived calculations

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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.