X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.5
Temperature 300.0
Details 1.5 M Sodium Citrate and 0.1M Hepes pH 7.5, VAPOR DIFFUSION, temperature 300K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.7 α = 90
b = 90.7 β = 90
c = 31.27 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2005-07-23
Diffraction Radiation
Monochromator Protocol
Si 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 0.97972 APS 17-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
1.89 17.9 90.0 0.068 0.068 -- 6.7 6861 6861 0.0 0.0 25.2
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)
1.895 1.93 61.3 0.397 0.397 2.01 4.0 228

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 1.895 17.9 0.0 0.0 6358 6358 499 89.86 -- 0.20335 0.19825 0.27028 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 1.895 1.944 -- 30 321 0.25 0.287 -- 61.26
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.988
Anisotropic B[1][1] -2.3
Anisotropic B[1][2] -1.15
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.3
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.44
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 6.247
r_xyhbond_nbd_refined 0.167
r_mcbond_it 1.346
r_bond_refined_d 0.022
r_dihedral_angle_4_deg 21.825
r_dihedral_angle_2_deg 40.697
r_scbond_it 3.653
r_chiral_restr 0.16
r_angle_refined_deg 2.279
r_dihedral_angle_1_deg 7.308
r_nbd_refined 0.243
r_symmetry_vdw_refined 0.262
r_dihedral_angle_3_deg 22.113
r_nbtor_refined 0.311
r_symmetry_hbond_refined 0.224
r_mcangle_it 2.216
r_gen_planes_refined 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 870
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 30

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
JDirector data collection
HKL-2000 data scaling
MOLREP phasing
O model building