X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 292.0
Details NH42SO4, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.98 α = 90
b = 70.98 β = 90
c = 216.39 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV -- 1999-03-06
Diffraction Radiation
Monochromator Protocol
Yale Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE OTHER 1.5482 -- --

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
1.95 62.02 96.4 -- 0.058 -- 17.9 -- 20348 0.0 2.5 24.8
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)
1.95 2.01 89.3 -- 0.29 3.1 -- --

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 1.95 62.02 -- 0.0 24605 20348 1183 95.51 0.15941 0.15941 0.15762 0.19522 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 1.95 2.001 -- 76 1462 0.194 0.238 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.99
Anisotropic B[1][1] 0.9
Anisotropic B[1][2] 0.45
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.9
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.35
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.085
r_nbtor_other 0.114
r_angle_refined_deg 1.425
r_gen_planes_other 0.004
r_scangle_it 2.897
r_scbond_it 1.822
r_gen_planes_refined 0.005
r_nbd_refined 0.207
r_nbd_other 0.253
r_symmetry_vdw_refined 0.221
r_symmetry_vdw_other 0.343
r_symmetry_hbond_refined 0.298
r_dihedral_angle_1_deg 6.474
r_bond_other_d 0.003
r_bond_refined_d 0.013
r_mcbond_it 0.652
r_angle_other_deg 0.817
r_mcangle_it 1.085
r_xyhbond_nbd_refined 0.192
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.12
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1755
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 270

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
CNS phasing