X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Details CRYSTALS WERE GROWN FROM A SOLUTION CONTAINING 3.5 MG/ML PROTEIN, 30-35 % PEG 4000 10 MM ARABINOSE-5-PHOSPHATE, 0.05M TRIS-HCL PH 8.4, 0.1 M MGCL2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.05 α = 90.23
b = 42.4 β = 100.98
c = 60.19 γ = 98.98
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD GE(220),HORIZONTAL FOCUSING MULTILAYER 2002-07-13
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
1.25 40 81.8 -- 0.095 -- 4.3 -- 90067 -- -- --
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)
1.25 1.32 40.1 -- 0.76 1.1 3.6 --

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 1.25 40.0 -- -- -- 86708 4498 81.8 -- 0.224 0.224 0.24 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 1.25 1.28 -- 136 2767 0.304 0.293 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 10.26
Anisotropic B[1][1] -0.54
Anisotropic B[1][2] -0.68
Anisotropic B[1][3] 0.25
Anisotropic B[2][2] -0.48
Anisotropic B[2][3] -0.3
Anisotropic B[3][3] 0.89
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.008
r_angle_other_deg 1.863
r_xyhbond_nbd_refined 0.116
r_mcbond_it 0.775
r_bond_refined_d 0.016
r_chiral_restr 0.108
r_scbond_it 2.236
r_scangle_it 3.122
r_symmetry_vdw_refined 0.161
r_symmetry_hbond_refined 0.507
r_mcangle_it 1.147
r_nbd_refined 0.22
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2771
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 159

Software

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