- PDB-4byz: Structural characterization using Sulfur-SAD of the cytoplasmic d... -
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ID or keywords:
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Basic information
Entry
Database: PDB / ID: 4byz
Title
Structural characterization using Sulfur-SAD of the cytoplasmic domain of Burkholderia pseudomallei PilO2Bp, an actin-like protein component of a Type IVb R64-derivative pilus machinery.
Components
TYPE IV PILUS BIOSYNTHESIS PROTEIN
Keywords
MOTOR PROTEIN
Function / homology
Pilin accessory predicted / Pilin accessory protein (PilO) / : / PHOSPHATE ION / Type IV pilus biosynthesis protein
Function and homology information
Biological species
BURKHOLDERIA PSEUDOMALLEI (bacteria)
Method
X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.55 Å
Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Mar 12, 2013 / Details: MIRRORS
Radiation
Monochromator: SI(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength
Wavelength: 0.97872 Å / Relative weight: 1
Reflection
Resolution: 1.55→50 Å / Num. obs: 27940 / % possible obs: 99.9 % / Observed criterion σ(I): 2 / Redundancy: 10.3 % / Rmerge(I) obs: 0.06 / Net I/σ(I): 35.9
Reflection shell
Resolution: 1.55→1.93 Å / Redundancy: 10.1 % / Rmerge(I) obs: 0.68 / Mean I/σ(I) obs: 2.95 / % possible all: 100
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Processing
Software
Name
Version
Classification
REFMAC
5.7.0029
refinement
HKL-2000
datareduction
HKL-2000
datascaling
Refinement
Method to determine structure: SAD Starting model: NONE Resolution: 1.55→32.03 Å / Cor.coef. Fo:Fc: 0.971 / Cor.coef. Fo:Fc free: 0.949 / SU B: 3.15 / SU ML: 0.051 / Cross valid method: THROUGHOUT / ESU R: 0.1 / ESU R Free: 0.082 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES WITH TLS ADDED
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.19844
1438
5.2 %
RANDOM
Rwork
0.14961
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obs
0.15209
26448
99.96 %
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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