X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7
Details pH 7.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.2 α = 90
b = 100.4 β = 90
c = 66.2 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR SDMS -- 1999-02-08
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 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
2.11 -- 96.9 0.094 -- -- 6.3 -- 36755 -- -- --
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)
2.11 2.27 87.1 0.272 -- 1.5 2.6 --

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 2.11 10.0 -- 0.0 33380 33380 3451 95.55 -- 0.20108 0.19683 0.2414 matched to 1RQ3 data
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 2.11 2.154 -- 24 1576 0.312 0.251 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.486
Anisotropic B[1][1] -1.77
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.03
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.26
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 3.395
r_nbd_refined 0.244
r_nbd_other 0.197
r_symmetry_vdw_refined 0.111
r_chiral_restr 0.085
r_angle_other_deg 0.767
r_symmetry_hbond_refined 0.207
r_bond_refined_d 0.021
r_gen_planes_refined 0.005
r_bond_other_d 0.001
r_xyhbond_nbd_other 0.264
r_gen_planes_other 0.003
r_mcbond_it 0.684
r_scangle_it 3.123
r_mcangle_it 1.242
r_xyhbond_nbd_refined 0.225
r_symmetry_vdw_other 0.142
r_scbond_it 1.96
r_angle_refined_deg 1.505
r_dihedral_angle_3_deg 17.65
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4386
Nucleic Acid Atoms 0
Heterogen Atoms 180
Solvent Atoms 164

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0
SDMS data reduction
SDMS data scaling
X-PLOR phasing