5YUO | pdb_00005yuo

Crystal structure of SSB protein from Pseudomonas aeruginosa PAO1

PDB DOI: https://doi.org/10.2210/pdb5YUO/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Pseudomonas aeruginosa PAO1
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2017-11-22 Released: 2018-10-31
Deposition Author(s): Huang, Y.H., Huang, C.Y.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.04 Å
R-Value Free:
0.258 (Depositor), 0.260 (DCC)
R-Value Work:
0.217 (Depositor), 0.220 (DCC)
R-Value Observed:
0.220 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

The glycine-rich flexible region in SSB is crucial for PriA stimulation.

Huang, Y.H., Huang, C.Y.

(2018) RSC Adv 8: 35280-35288

DOI: https://doi.org/10.1039/C8RA07306F

Macromolecule Content

Total Structure Weight: 55.28 kDa
Atom Count: 3,323
Modeled Residue Count: 408
Deposited Residue Count: 484
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Single-stranded DNA-binding protein	A, B, C, D	121	Pseudomonas aeruginosa PAO1	Mutation(s): 0 Gene Names: ssb, PA4232
UniProt
Find proteins for P40947 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore P40947 Go to UniProtKB: P40947
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P40947
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain F [auth C] SDF format, chain E [auth B] MOL2 format, chain F [auth C] MOL2 format, chain E [auth B] mmCIF format, chain F [auth C] mmCIF format, chain E [auth B]	E [auth B], F [auth C]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain E [auth B] Focus chain F [auth C] Interactions & Density Focus chain E [auth B] Focus chain F [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.04 Å
R-Value Free: 0.258 (Depositor), 0.260 (DCC)
R-Value Work: 0.217 (Depositor), 0.220 (DCC)
R-Value Observed: 0.220 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.208	α = 90
b = 64.104	β = 112.96
c = 97.103	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2018-10-31

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2018-10-31
Type: Initial release
Version 1.1: 2023-11-22
Changes: Data collection, Database references, Refinement description

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.