X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.7
Temperature 298.0
Details PEG 3000, B-n-octyl-glucopyranoside, glutathione sulfonate, sodium acetate, pH 4.7, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.62 α = 90
b = 57.17 β = 90
c = 134.93 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 113
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV -- 1997-09-10
Diffraction Radiation
Monochromator Protocol
Yale mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 1.54 -- --

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 19.7 87.53 0.042 -- -- -- -- 23318 4.0 -3.0 --

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 19.17 -- 4.0 -- 23318 2563 87.53 0.234 0.20089 0.19452 0.26005 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 1.953 -- 88 807 0.211 0.296 -- 87.4
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.321
Anisotropic B[1][1] -0.01
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.01
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_vdw_other 0.343
r_bond_other_d 0.002
r_bond_refined_d 0.02
r_mcbond_it 1.164
r_symmetry_vdw_refined 0.16
r_dihedral_angle_1_deg 6.24
r_angle_refined_deg 1.858
r_scangle_it 4.759
r_chiral_restr 0.141
r_nbd_refined 0.223
r_nbtor_other 0.088
r_angle_other_deg 1.056
r_xyhbond_nbd_refined 0.171
r_mcangle_it 2.081
r_gen_planes_refined 0.008
r_gen_planes_other 0.007
r_nbd_other 0.235
r_symmetry_hbond_refined 0.118
r_scbond_it 2.894
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3107
Nucleic Acid Atoms 0
Heterogen Atoms 46
Solvent Atoms 153

Software

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