- PDB-3io5: Crystal Structure of a dimeric form of the uvsX Recombinase core ... -
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Basic information
Entry
Database: PDB / ID: 3io5
Title
Crystal Structure of a dimeric form of the uvsX Recombinase core domain from Enterobacteria Phage T4
Components
Recombination and repair protein
Keywords
DNA BINDING PROTEIN / storage dimer / inactive conformation / RecA like core domain / ATP-binding / DNA damage / DNA recombination / DNA repair / DNA replication / Nucleotide-binding
Function / homology
Function and homology information
ATP-dependent activity, acting on DNA / single-stranded DNA binding / DNA replication / DNA recombination / DNA repair / ATP binding Similarity search - Function
DNA recombination and repair protein RecA / recA bacterial DNA recombination protein / DNA recombination and repair protein RecA, monomer-monomer interface / RecA family profile 2. / DNA recombination and repair protein RecA-like, ATP-binding domain / RecA family profile 1. / P-loop containing nucleotide triphosphate hydrolases / Rossmann fold / P-loop containing nucleoside triphosphate hydrolase / 3-Layer(aba) Sandwich / Alpha Beta Similarity search - Domain/homology
Resolution: 2.35→2.462 Å / Redundancy: 5.4 % / Mean I/σ(I) obs: 3.7 / Num. unique all: 2394 / Rsym value: 0.345 / % possible all: 84.7
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Processing
Software
Name
Version
Classification
NB
DENZO
datareduction
SCALEPACK
datascaling
REFMAC
5.5.0035
refinement
PDB_EXTRACT
3.005
dataextraction
MAR345dtb
datacollection
HKL-2000
datareduction
HKL-2000
datascaling
PHENIX
phasing
Refinement
Method to determine structure: SAD / Resolution: 2.4→41.56 Å / Cor.coef. Fo:Fc: 0.945 / Cor.coef. Fo:Fc free: 0.921 / Occupancy max: 1 / Occupancy min: 1 / SU B: 18.557 / SU ML: 0.191 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.374 / ESU R Free: 0.251 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES: RESIDUAL ONLY
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.248
1330
5 %
RANDOM
Rwork
0.21
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obs
0.212
26592
99.25 %
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Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK
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