X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.0
Details 1.6M ammonium sulfate, 0.1M MES, 10%(v/v) 1,4-dioxane, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 61.93 α = 90
b = 167.71 β = 90
c = 174.86 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2010-05-15
Diffraction Radiation
Monochromator Protocol
Si(111) double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0000 Photon Factory AR-NW12A

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
1.9 35.7 99.6 -- 0.077 -- 5.3 143858 143236 0.0 -3.0 --
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)
1.9 1.93 98.6 -- 0.487 3.4 5.0 --

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
MOLECULAR REPLACEMENT 1.9 30.47 -- -- -- 135918 7166 99.29 -- 0.17149 0.17021 0.19516 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 1.9 1.949 -- 528 9556 0.227 0.267 -- 95.53
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.401
Anisotropic B[1][1] -0.11
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.55
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.66
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 15.508
r_bond_refined_d 0.006
r_gen_planes_refined 0.004
r_dihedral_angle_1_deg 6.502
r_dihedral_angle_3_deg 12.263
r_angle_refined_deg 1.176
r_chiral_restr 0.094
r_gen_planes_other 0.001
r_dihedral_angle_2_deg 34.554
r_bond_other_d 0.001
r_angle_other_deg 0.898
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.078
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11012
Nucleic Acid Atoms 0
Heterogen Atoms 526
Solvent Atoms 1226

Software

Software
Software Name Purpose
SERGUI data collection
MOLREP phasing
REFMAC refinement version: 5.7.0029
HKL-2000 data reduction
SCALEPACK data scaling