X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.7
Temperature 277.0
Details Tris HCl pH 7.7-7.8 , sodium 4-(hydroxymercury)benzoate , VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42 α = 90
b = 41.35 β = 104.35
c = 72.34 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD OXFORD SAPPHIRE CCD -- 2007-09-01
Diffraction Radiation
Monochromator Protocol
capillary SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SEALED TUBE OXFORD DIFFRACTION ENHANCE ULTRA 1.5418 -- --

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
1.89 20 99.0 -- 0.12 -- 4.6 -- 19119 2.0 0.0 --
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)
1.89 1.97 -- -- 0.46 -- 3.0 1920

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 1.89 20.0 -- -- -- 18123 977 98.64 -- 0.1983 0.19611 0.23862 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 1.894 1.943 -- 54 1200 0.237 0.339 -- 90.87
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.278
Anisotropic B[1][1] 0.18
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.13
Anisotropic B[2][2] -0.16
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.05
RMS Deviations
Key Refinement Restraint Deviation
r_nbtor_refined 0.308
r_bond_refined_d 0.009
r_scbond_it 1.414
r_gen_planes_refined 0.004
r_xyhbond_nbd_refined 0.136
r_nbd_refined 0.197
r_symmetry_hbond_refined 0.145
r_dihedral_angle_3_deg 17.247
r_angle_refined_deg 1.543
r_dihedral_angle_4_deg 19.231
r_dihedral_angle_1_deg 6.268
r_symmetry_vdw_refined 0.184
r_metal_ion_refined 0.055
r_dihedral_angle_2_deg 36.433
r_chiral_restr 0.221
r_scangle_it 2.219
r_mcangle_it 0.958
r_mcbond_it 0.56
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2062
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 194

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
CrysalisPro data collection version: Oxford Diffraction2006
CrysalisPro data reduction version: Oxford Diffraction2006
SCALA data scaling
AMoRE phasing