X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.1
Temperature 277.0
Details 0.2000M CaCl2, 20.0000% PEG-3350, No Buffer pH 5.1, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.65 α = 90
b = 94.69 β = 90
c = 165.04 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 and horizontal focussing mirrors 2009-05-08
Diffraction Radiation
Monochromator Protocol
Double crystal monochromator MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL12-2 0.91162,0.97956,0.97938 SSRL BL12-2

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
1.55 29.49 98.1 0.105 0.105 -- 3.6 -- 146647 -- -- 14.104
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)
1.55 1.59 99.4 0.693 0.693 1.1 3.6 10849

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 1.55 29.488 -- 0.0 -- 146527 7345 97.98 -- 0.174 0.172 0.209 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 1.55 1.59 -- 523 10312 0.252 0.304 -- 99.19
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.866
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.15
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 2.278
r_dihedral_angle_4_deg 19.756
r_angle_other_deg 0.956
r_mcbond_it 0.864
r_scangle_it 3.475
r_angle_refined_deg 1.527
r_bond_other_d 0.001
r_gen_planes_refined 0.009
r_gen_planes_other 0.001
r_dihedral_angle_2_deg 35.466
r_mcbond_other 0.277
r_dihedral_angle_3_deg 12.507
r_bond_refined_d 0.017
r_mcangle_it 1.432
r_dihedral_angle_1_deg 5.796
r_chiral_restr 0.1
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7618
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 1475

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0053
PHENIX refinement
SOLVE phasing
MolProbity model building version: 3beta29
SCALA data scaling version: 3.2.5
PDB_EXTRACT data extraction version: 3.006
MOSFLM data reduction