X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 298.0
Details 0.01 M Tris-HCl buffer, pH 7.0, 2 mM CaCl2, 1.2 M potassium phosphate, 3% MPD, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 61.94 α = 90
b = 55.76 β = 118.17
c = 60.19 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
IMAGE PLATE MARRESEARCH -- 1999-03-01
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 1.10 EMBL/DESY, Hamburg X11

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
1.72 20 93.0 -- -- -- -- 18778 18778 -2.0 -3.0 --
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)
1.72 1.76 95.4 -- -- -- -- --

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 1.72 19.69 -- -3.0 17769 17769 965 97.34 0.16791 0.16791 0.16579 0.20809 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 1.72 1.764 -- 51 1255 0.223 0.302 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.378
Anisotropic B[1][1] 0.84
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.84
Anisotropic B[2][2] -0.23
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.13
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_other 0.245
r_symmetry_vdw_other 0.361
r_mcangle_it 1.557
r_mcbond_it 0.877
r_bond_refined_d 0.013
r_symmetry_hbond_refined 0.275
r_bond_other_d 0.002
r_gen_planes_other 0.002
r_scangle_it 3.734
r_gen_planes_refined 0.006
r_angle_refined_deg 1.42
r_nbd_refined 0.183
r_scbond_it 2.301
r_angle_other_deg 1.191
r_chiral_restr 0.121
r_dihedral_angle_1_deg 5.782
r_nbtor_other 0.085
r_xyhbond_nbd_refined 0.156
r_symmetry_vdw_refined 0.226
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1600
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 124

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.19
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing