X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.5
Temperature 293.0
Details PEG8000, sodium acetate, sodium chloride, dithiotreithol, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 119.39 α = 90
b = 124.38 β = 103.68
c = 107.24 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-08-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.811 EMBL/DESY, Hamburg X11

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 18 97.2 -- 0.07 -- 2.7 -- 119507 -- -- --
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 1.97 96.6 -- 0.399 3.2 -- --

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 1.9 18.0 -- -- -- 110169 5794 97.16 -- 0.18445 0.18241 0.22268 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 1.949 -- 432 8045 0.233 0.303 -- 96.67
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.972
Anisotropic B[1][1] 1.96
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.3
Anisotropic B[2][2] 0.4
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.74
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.185
r_dihedral_angle_1_deg 6.898
r_mcangle_it 1.595
r_bond_other_d 0.001
r_nbd_refined 0.221
r_symmetry_vdw_other 0.337
r_dihedral_angle_2_deg 35.73
r_angle_refined_deg 1.78
r_xyhbond_nbd_other 0.018
r_chiral_restr 0.125
r_dihedral_angle_4_deg 19.657
r_symmetry_vdw_refined 0.275
r_dihedral_angle_3_deg 16.342
r_scbond_it 2.633
r_angle_other_deg 0.948
r_mcbond_other 0.267
r_bond_refined_d 0.019
r_nbd_other 0.187
r_scangle_it 3.66
r_nbtor_refined 0.183
r_gen_planes_other 0.001
r_mcbond_it 1.375
r_xyhbond_nbd_refined 0.165
r_nbtor_other 0.089
r_metal_ion_refined 0.133
r_gen_planes_refined 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10001
Nucleic Acid Atoms 0
Heterogen Atoms 122
Solvent Atoms 791

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
MAR345 data collection
SCALEPACK data scaling