X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4
Details HANGING DROP WITH 5 MG/ML PROTEIN AND 18% (V/V) DIOXANE. RESERVOIR WITH 35% (V/V) DIOXANE. HAMPTON CRYSTAL SCREEN-2 NO.4, pH 4.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 108.02 α = 90
b = 108.02 β = 90
c = 57.17 γ = 90
Symmetry
Space Group P 4 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1999-03-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B -- EMBL/DESY, Hamburg BW7B

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
1.35 30.5 96.0 0.052 -- -- 3.7 -- 71387 -- -- 10.6
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)
1.35 1.4 95.0 0.38 -- 1.7 3.4 --

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 1.35 30.43 -- -- -- 69212 2175 95.8 -- 0.112 0.111 0.142 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 1.35 1.39 -- 148 4849 0.209 0.306 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.43
Anisotropic B[1][1] -0.27
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.27
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.53
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.252
r_dihedral_angle_3_deg 15.776
r_nbd_other 0.188
r_symmetry_hbond_refined 0.283
r_symmetry_vdw_refined 0.278
r_gen_planes_other 0.002
r_chiral_restr 0.086
r_mcangle_it 3.696
r_mcbond_it 2.842
r_gen_planes_refined 0.004
r_angle_other_deg 1.112
r_bond_refined_d 0.007
r_symmetry_vdw_other 0.196
r_scbond_it 4.896
r_xyhbond_nbd_refined 0.191
r_nbtor_other 0.229
r_metal_ion_refined 0.101
r_xyhbond_nbd_other 0.179
r_nbd_refined 0.229
r_bond_other_d 0.001
r_scangle_it 5.99
r_dihedral_angle_1_deg 4.067
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2120
Nucleic Acid Atoms 0
Heterogen Atoms 47
Solvent Atoms 525

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0
MOSFLM data reduction
SCALA data scaling
AMoRE phasing