X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details PROTEIN WAS CONCENTRATED TO 10MG/ML IN WATER.CRYSTALLISATION IN 200MM CALCIUM ACETATE, 100MM HEPES PH 7.5 AND 21% POLYETHYLENE GLYCOL 5KMME.20 % GLYCEROL WAS ADDED FOR CRYOPROTECTION

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 49.36 α = 90
b = 69.84 β = 113.52
c = 51.95 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD TORROIDAL MIRROR 2002-06-15
Diffraction Radiation
Monochromator Protocol
DIAMOND (111), GE(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-1 -- ESRF ID14-1

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
1.31 15 91.7 0.06 -- -- 6.2 -- 77018 -- 0.0 --
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)
1.31 1.33 100.0 0.275 -- 7.6 5.6 --

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 1.31 15.0 -- -- -- 65959 3485 90.2 -- 0.132 0.13 0.162 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 1.31 1.35 -- 271 5079 0.146 0.198 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.29
Anisotropic B[1][1] 0.13
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.28
Anisotropic B[2][2] -0.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.3
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.016
r_metal_ion_refined 0.143
r_dihedral_angle_1_deg 6.328
r_bond_other_d 0.008
r_mcangle_it 2.133
r_scangle_it 3.842
r_nbtor_other 0.085
r_symmetry_vdw_refined 0.077
r_symmetry_hbond_refined 0.147
r_angle_refined_deg 1.686
r_chiral_restr 0.112
r_mcbond_it 1.501
r_gen_planes_refined 0.009
r_nbd_refined 0.259
r_nbd_other 0.262
r_symmetry_vdw_other 0.33
r_angle_other_deg 1.019
r_xyhbond_nbd_refined 0.124
r_gen_planes_other 0.006
r_scbond_it 2.686
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2804
Nucleic Acid Atoms 0
Heterogen Atoms 58
Solvent Atoms 521

Software

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