X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6
Details 20% PEG 5000 MONOMETHYL ETHER (FLUKA) AND 20 MM SODIUM MES BUFFER, PH 6.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 48.82 α = 103.97
b = 74.68 β = 103.43
c = 93.29 γ = 90
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD (QUANTUM 210) ADSC -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 -- 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 30 96.4 0.06 -- -- 3.9 -- 131667 -- 2.0 --
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)
1.7 1.8 95.1 0.37 -- 4.1 3.9 --

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 87.9 -- -- -- 125035 6627 96.37 -- 0.19027 0.18859 0.2214 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 1.744 -- 468 9196 0.24 0.268 -- 95.02
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.304
Anisotropic B[1][1] 0.34
Anisotropic B[1][2] 0.02
Anisotropic B[1][3] -0.07
Anisotropic B[2][2] -0.53
Anisotropic B[2][3] 0.03
Anisotropic B[3][3] 0.17
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.005
r_chiral_restr 0.075
r_dihedral_angle_4_deg 10.185
r_dihedral_angle_3_deg 11.686
r_dihedral_angle_2_deg 37.567
r_dihedral_angle_1_deg 5.716
r_angle_refined_deg 1.216
r_bond_refined_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10937
Nucleic Acid Atoms 0
Heterogen Atoms 593
Solvent Atoms 1158

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
CCP4 SCALA Data Reduction (data scaling)
REFMAC 5.6.0117 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0117 refinement