3A5U | pdb_00003a5u

Promiscuity and specificity in DNA binding to SSB: Insights from the structure of the Mycobacterium smegmatis SSB-ssDNA complex

PDB DOI: https://doi.org/10.2210/pdb3A5U/pdb
NAKB: 3A5U

Classification: DNA BINDING PROTEIN
Organism(s): Mycolicibacterium smegmatis MC2 155
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2009-08-12 Released: 2010-08-18
Deposition Author(s): Kaushal, P.S., Manjunath, G.P., Sekar, K., Muniyappa, K., Vijayan, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free:
0.283 (Depositor), 0.281 (DCC)
R-Value Work:
0.238 (Depositor), 0.233 (DCC)
R-Value Observed:
0.240 (Depositor)

Starting Model: experimental
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This is version 1.2 of the entry. See complete history.

Literature

Promiscuity and specificity in DNA binding to SSB: Insights from the structure of the Mycobacterium smegmatis SSB-ssDNA complex.

Kaushal, P.S., Manjunath, G.P., Sekar, K., Muniyappa, K., Vijayan, M.

To be published.

Macromolecule Content

Total Structure Weight: 37.01 kDa
Atom Count: 2,236
Modeled Residue Count: 261
Deposited Residue Count: 291
Unique protein chains: 1
Unique nucleic acid chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Single-stranded DNA-binding protein	A, B	130	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0 Gene Names: ssb
UniProt
Find proteins for Q9AFI5 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore Q9AFI5 Go to UniProtKB: Q9AFI5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9AFI5
Sequence Annotations Expand
Reference Sequence

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Molecule	Chains	Length	Organism	Image
Entity ID: 2
DNA (31-MER)	C	31	N/A
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.283 (Depositor), 0.281 (DCC)
R-Value Work: 0.238 (Depositor), 0.233 (DCC)
R-Value Observed: 0.240 (Depositor)

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 112.33	α = 90
b = 112.33	β = 90
c = 48.49	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2010-08-18

Deposition Author(s):

Manjunath, G.P.

Revision History (Full details and data files)

Version 1.0: 2010-08-18
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-11-01
Changes: Data collection, Database references, 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.