X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 291.0
Details 1.3 mM ammonium sulfate, 0.1 M MES, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.61 α = 90
b = 90.61 β = 90
c = 148.52 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2011-11-22
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.9724 ESRF ID23-1

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
1.7 20 99.1 0.075 -- -- 4.8 -- 25529 -- -- --

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 1.7 15.0 -- -- -- 24226 1255 98.59 -- 0.18175 0.18048 0.20695 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 1.7 1.748 -- 101 1604 0.295 0.27 -- 90.98
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.088
Anisotropic B[1][1] 2.77
Anisotropic B[1][2] 1.39
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.77
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.16
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.543
r_scbond_it 3.261
r_mcangle_it 3.003
r_mcbond_other 0.535
r_mcbond_it 1.81
r_gen_planes_other 0.001
r_gen_planes_refined 0.012
r_chiral_restr 0.218
r_dihedral_angle_4_deg 13.373
r_dihedral_angle_3_deg 14.347
r_dihedral_angle_2_deg 33.427
r_dihedral_angle_1_deg 5.963
r_angle_other_deg 2.595
r_angle_refined_deg 2.479
r_bond_other_d 0.001
r_bond_refined_d 0.028
r_xyhbond_nbd_refined 0.188
r_symmetry_vdw_refined 0.149
r_symmetry_vdw_other 0.389
r_symmetry_hbond_refined 0.189
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 990
Nucleic Acid Atoms 405
Heterogen Atoms 20
Solvent Atoms 151

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
CNS Structure Solution
REFMAC 5.5.0110 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 version: 5.2.0019 refinement