X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.1
Temperature 293.0
Details MPD, 0.1 M sodium citrate, 50 mM benzoyl hydrazide

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 100.91 α = 90
b = 115.79 β = 90
c = 175.01 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 300 mm CCD mirrors 2009-07-27
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.98 CLSI 08ID-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
1.99 34.91 94.7 -- 0.12 5.2 4.4 -- 131010 -- -- --
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)
2.0 2.11 92.8 0.612 0.612 1.2 4.3 --

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 2.0 34.91 -- 0.0 -- 124459 6469 94.41 -- 0.1522 0.1505 0.1838 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 2.0 2.052 -- 460 8835 0.244 0.27 0.0 92.13
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.243
Anisotropic B[1][1] -0.62
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.41
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.78
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 1.372
r_dihedral_angle_4_deg 18.561
r_bond_other_d 0.001
r_angle_refined_deg 1.462
r_gen_planes_refined 0.015
r_dihedral_angle_2_deg 33.241
r_dihedral_angle_3_deg 13.74
r_gen_planes_other 0.01
r_bond_refined_d 0.009
r_dihedral_angle_1_deg 6.867
r_chiral_restr 0.071
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10998
Nucleic Acid Atoms 0
Heterogen Atoms 122
Solvent Atoms 1425

Software

Software
Software Name Purpose
SCALA data scaling version: 3.3.15
REFMAC refinement
PDB_EXTRACT data extraction version: 3.24
MOSFLM data reduction
REFMAC phasing