X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 291.5
Details 20% PEG 1000, 200 mM Imidazole pH 8.0, 100 mM Calcium acetate, VAPOR DIFFUSION, HANGING DROP, temperature 291.5K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.85 α = 90
b = 111.85 β = 96.49
c = 100.4 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 Mirrors 2005-03-04
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.96400 APS 19-ID

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
2.01 100 98.86 0.0671 0.0671 -- -- 136379 129513 -- 2.0 25.64
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)
2.01 2.06 89.41 0.353 0.353 -- -- --

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 2.01 34.59 -- -- 129513 129513 6853 98.86 -- 0.19249 0.18961 0.2468 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 2.01 2.06 -- 464 8687 0.252 0.358 -- 89.41
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.473
Anisotropic B[1][1] 2.17
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.19
Anisotropic B[2][2] -1.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.04
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.568
r_dihedral_angle_4_deg 19.144
r_mcangle_it 4.086
r_bond_refined_d 0.016
r_mcbond_it 3.318
r_dihedral_angle_3_deg 14.915
r_xyhbond_nbd_refined 0.141
r_chiral_restr 0.102
r_gen_planes_refined 0.006
r_symmetry_hbond_refined 0.188
r_scangle_it 7.57
r_symmetry_vdw_refined 0.249
r_scbond_it 5.854
r_dihedral_angle_2_deg 36.003
r_dihedral_angle_1_deg 6.542
r_nbd_refined 0.199
r_nbtor_refined 0.297
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 14992
Nucleic Acid Atoms 0
Heterogen Atoms 252
Solvent Atoms 844

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
ADSC data collection version: Quantum
HKL-2000 data reduction
HKL-2000 data scaling
AMoRE phasing