X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 291.0
Details PEG 4000 30%, CaCl2 200 mM, HEPES 100 mM, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.04 α = 90
b = 60.04 β = 90
c = 161.19 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-11-11
Diffraction Radiation
Monochromator Protocol
ASYMMETRIC CURVED CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.1 1.0 ALS 5.0.1

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
2.3 56.26 93.2 0.152 0.152 -- 7.2 12961 12961 -- 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)
2.3 2.42 100.0 0.625 0.625 1.2 7.6 --

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 2.3 48.19 -- -- 12961 12210 643 92.87 -- 0.2224 0.2194 0.2837 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 2.3 2.36 -- 71 924 0.273 0.367 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 47.487
Anisotropic B[1][1] 3.11
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.11
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.23
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.638
r_bond_other_d 0.002
r_bond_refined_d 0.013
r_dihedral_angle_3_deg 15.581
r_dihedral_angle_4_deg 15.968
r_gen_planes_refined 0.008
r_angle_other_deg 0.966
r_dihedral_angle_1_deg 6.279
r_chiral_restr 0.084
r_dihedral_angle_2_deg 35.43
r_gen_planes_other 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2026
Nucleic Acid Atoms 0
Heterogen Atoms 21
Solvent Atoms 58

Software

Software
Software Name Purpose
SCALA data scaling version: 3.3.21
PHASER phasing
PHENIX refinement
PDB_EXTRACT data extraction version: 3.14
ADSC data collection version: Quantum
MOSFLM data reduction
REFMAC refinement version: 5.7.0029