X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Details HANGING DROP 3 UL PLUS 3UL PROTEIN: 7MG/ML, 2MM COMPOUND, 25MM TRIS PH7.5, 500MM NACL, 5% GLYCEROL. 5MM DTT WELL: 16-22% (W/V) PEG3350, 150MM AMMONIUM SULPHATE AND 100 MM BES PH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.26 α = 90
b = 70.9 β = 90
c = 104.24 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-08-20
Diffraction Radiation
Monochromator Protocol
SI111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 -- EMBL/DESY, Hamburg X13

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
1.92 31.16 94.3 0.08 -- -- 5.8 -- 22530 -- 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)
1.92 2.02 89.4 0.29 -- 5.6 5.4 --

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 1.92 31.16 -- -- -- 21383 1147 93.59 -- 0.1894 0.1876 0.22368 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 1.92 1.97 -- 89 1377 0.21 0.244 -- 83.53
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.693
Anisotropic B[1][1] -1.49
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.65
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.17
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 5.158
r_bond_refined_d 0.007
r_angle_refined_deg 1.269
r_mcbond_other 0.077
r_dihedral_angle_3_deg 12.344
r_angle_other_deg 1.825
r_gen_planes_other 0.001
r_mcangle_it 0.937
r_gen_planes_refined 0.004
r_scbond_it 1.275
r_dihedral_angle_4_deg 15.719
r_dihedral_angle_2_deg 37.479
r_scangle_it 2.124
r_bond_other_d 0.001
r_chiral_restr 0.157
r_mcbond_it 0.503
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2091
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 241

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0102
MOSFLM data reduction
SCALA data scaling
AMoRE phasing