X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 291.0
Details 0.085M TrisCl, 0.170M Sodium Acetate, 25.5% PEG 4000, 15% glycerol, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 59.29 α = 90
b = 59.29 β = 90
c = 140.25 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2006-05-17
CCD ADSC QUANTUM 210 -- 2006-05-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 0.9794 ESRF ID29
SYNCHROTRON ESRF BEAMLINE ID29 0.9794, 0.9798, 0.9764 ESRF ID29

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 18.75 98.9 -- 0.05 -- 8.6 17665 17665 -- -- 27.8
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)
2.0 2.11 98.7 -- 0.195 -- 8.9 2470

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
MAD 2.0 18.75 -- -- -- 16512 888 98.5 -- 0.19648 0.19409 0.24356 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 2.0 2.052 -- 67 1183 0.2 0.28 -- 98.27
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.895
Anisotropic B[1][1] -0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.1
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.149
r_angle_refined_deg 1.776
r_scbond_it 3.289
r_xyhbond_nbd_refined 0.203
r_nbd_refined 0.221
r_mcbond_it 1.355
r_nbtor_refined 0.301
r_dihedral_angle_3_deg 11.563
r_gen_planes_refined 0.007
r_scangle_it 4.958
r_dihedral_angle_1_deg 3.448
r_dihedral_angle_4_deg 13.612
r_chiral_restr 0.113
r_symmetry_vdw_refined 0.196
r_mcangle_it 2.111
r_bond_refined_d 0.018
r_dihedral_angle_2_deg 33.763
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1922
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 144

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
ADSC data collection version: QUANTUM
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
SHARP phasing