X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 292.0
Details Tris-HCl, NaCl, PEG6000, ethylene glycol, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.28 α = 90
b = 109.26 β = 90
c = 108.99 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 MARRESEARCH -- 2001-06-12
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 0.946439 ESRF BM14

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 30.86 99.9 0.094 -- -- -- 64042 63750 0.0 1.9 --
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 1.95 99.9 0.398 -- 0.019 3.7 --

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
SAD 1.9 57.74 -- 0.0 60746 60746 3228 99.89 0.178 0.178 0.175 0.222 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 1.95 4709 227 -- 0.251 0.29 -- 99.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 33.12
Anisotropic B[1][1] -0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.08
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.031
r_dihedral_angle_3_deg 16.966
r_symmetry_vdw_other 0.295
r_bond_other_d 0.001
r_nbd_other 0.209
r_mcbond_it 1.184
r_symmetry_vdw_refined 0.3
r_angle_refined_deg 2.052
r_scbond_it 3.636
r_xyhbond_nbd_other 0.089
r_symmetry_hbond_refined 0.546
r_scangle_it 5.266
r_angle_other_deg 0.976
r_dihedral_angle_1_deg 4.837
r_xyhbond_nbd_refined 0.214
r_mcangle_it 1.984
r_gen_planes_other 0.003
r_chiral_restr 0.137
r_gen_planes_refined 0.01
r_nbd_refined 0.238
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.161
Luzzati ESD (R-Free Set) 0.148
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6374
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 659

Software

Software
Software Name Purpose
SnB phasing
REFMAC refinement version: 5.0
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
SHAKE-N-BAKE phasing