X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 9
Temperature 277.0
Details 30.0% PEG-6000, 0.1M Bicine pH 9.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 58.46 α = 90
b = 71.96 β = 90
c = 120.81 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2010-06-09
Diffraction Radiation
Monochromator Protocol
Single crystal Si(111) bent monochromator (horizontal focusing) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.93925,0.97939,0.97891 SSRL BL11-1

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.16 45.37 95.2 0.047 -- -- 3.55 -- 26772 -- -3.0 42.666
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.16 2.24 70.4 0.614 -- 2.0 -- --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MAD 2.16 45.372 -- 0.0 -- 26738 1357 -- -- 0.1972 0.1955 0.2286 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.16 2.25 -- 111 2096 0.2491 0.3312 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 61.4576
Anisotropic B[1][1] -1.0885
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -11.1084
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 12.1969
RMS Deviations
Key Refinement Restraint Deviation
t_angle_deg 1.12
t_other_torsion 2.72
t_omega_torsion 3.68
t_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3279
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 275

Software

Software
Software Name Purpose
SHELX phasing
BUSTER-TNT refinement version: BUSTER 2.8.0
XSCALE data processing
PDB_EXTRACT data extraction version: 3.10
XDS data reduction
XSCALE data scaling
SHELXD phasing
autoSHARP phasing
BUSTER refinement version: 2.8.0