X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.1
Temperature 288.0
Details PEG 6000, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 288K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 63.12 α = 90
b = 63.12 β = 90
c = 99.28 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- 2003-08-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline

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
2.2 23.9 -- -- -- -- -- -- 5889 -- -- --

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 2.503 23.9 -- -- -- 4573 217 94.05 0.21712 0.21712 0.2156 0.25405 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 2.503 2.568 -- 11 220 0.386 0.435 -- 62.1
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.579
Anisotropic B[1][1] 4.24
Anisotropic B[1][2] 2.12
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.24
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.36
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 0.401
r_scangle_it 0.625
r_nbd_refined 0.185
r_symmetry_vdw_refined 0.087
r_dihedral_angle_3_deg 14.872
r_nbtor_other 0.076
r_mcbond_other 0.027
r_mcangle_it 0.293
r_nbd_other 0.155
r_nbtor_refined 0.152
r_dihedral_angle_2_deg 34.784
r_dihedral_angle_4_deg 11.752
r_angle_refined_deg 0.948
r_gen_planes_refined 0.002
r_mcbond_it 0.266
r_chiral_restr 0.058
r_bond_other_d 0.002
r_gen_planes_other 0.001
r_symmetry_vdw_other 0.159
r_bond_refined_d 0.006
r_dihedral_angle_1_deg 5.387
r_angle_other_deg 0.671
r_xyhbond_nbd_refined 0.118
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 804
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 5

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
SCALEPACK data scaling
AMoRE phasing