X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details PROTEIN CONCENTRATION 20MG/ML, 2M AMMONIUM SULPHATE, 25% GLYCEROL AS CRYOPROTECTANT, pH 5.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 54.45 α = 90
b = 69.88 β = 90
c = 77.32 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
IMAGE PLATE MARRESEARCH -- 1998-10-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A -- EMBL/DESY, Hamburg BW7A

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
1.08 20 99.7 0.064 -- -- 4.3 -- 540161 -- -- --
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)
1.08 1.12 99.2 0.282 -- 5.0 3.5 --

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
OTHER 1.08 20.0 -- -- -- 119386 6334 99.2 -- 0.109 0.108 0.125 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 1.08 1.11 -- 460 8108 0.153 0.172 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 9.72
Anisotropic B[1][1] 1.3
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.75
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.55
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.219
r_symmetry_vdw_refined 0.185
r_scbond_it 2.595
r_angle_other_deg 1.912
r_nbd_other 0.269
r_bond_other_d 0.001
r_symmetry_vdw_other 0.312
r_mcangle_it 1.99
r_bond_refined_d 0.017
r_gen_planes_other 0.01
r_nbtor_other 0.082
r_dihedral_angle_3_deg 2.087
r_chiral_restr 6.373
r_mcbond_it 1.382
r_gen_planes_refined 0.012
r_symmetry_hbond_refined 0.127
r_scangle_it 3.695
r_xyhbond_nbd_refined 0.127
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2377
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 510

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
CCP4 phasing