X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 291.0
Details PEG3350, NaCl, MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.86 α = 90
b = 88.79 β = 107.81
c = 72.11 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 ADSC QUANTUM 4 Sagitally focusing Ge(220) and a multilayer 2004-03-06
Diffraction Radiation
Monochromator Protocol
Diamond (111), Ge(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 0.93400 ESRF ID14-1

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
2 20 78.8 0.07 -- -- 2.0 30084 30084 0.0 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)
2.0 2.03 60.9 0.529 -- 1.9 1.9 1158

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 19.92 0.0 0.0 28444 28444 1518 100.0 0.18011 0.18011 0.17738 0.2297 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 2.051 1644 92 1644 0.245 0.322 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 32.135
Anisotropic B[1][1] 0.85
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.61
Anisotropic B[2][2] -1.35
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.1
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 0.55
r_angle_other_deg 0.786
r_nbtor_other 0.085
r_symmetry_vdw_refined 0.2
r_nbtor_refined 0.175
r_bond_refined_d 0.011
r_dihedral_angle_2_deg 35.935
r_xyhbond_nbd_refined 0.171
r_mcbond_other 0.119
r_gen_planes_other 0.001
r_scbond_it 1.304
r_dihedral_angle_1_deg 6.374
r_dihedral_angle_4_deg 11.504
r_gen_planes_refined 0.004
r_angle_refined_deg 1.318
r_scangle_it 1.958
r_bond_other_d 0.001
r_symmetry_hbond_refined 0.196
r_nbd_other 0.173
r_nbd_refined 0.198
r_mcangle_it 0.696
r_symmetry_vdw_other 0.225
r_chiral_restr 0.078
r_dihedral_angle_3_deg 14.512
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3944
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 324

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
MOSFLM data reduction
SCALEPACK data scaling
MOLREP phasing