X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 298.0
Details 90 mM MnCl2, 0.8%(v/v)PEG3350, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.27 α = 90
b = 173.32 β = 95.87
c = 118.19 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 QUANTUM 315 -- 2007-02-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.0809 NSLS X29A

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
2.8 30 94.3 0.072 -- -- 3.6 -- 76525 2.0 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)
2.8 2.9 67.4 0.413 -- -- 3.0 --

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 2.8 30.0 -- -- 71717 71717 3915 94.68 -- 0.21852 0.21567 0.27129 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 2.8 2.872 -- 228 3693 0.307 0.336 -- 67.28
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 82.496
Anisotropic B[1][1] 3.52
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -5.79
Anisotropic B[2][2] -2.62
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.09
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 1.182
r_dihedral_angle_3_deg 19.909
r_nbd_refined 0.213
r_bond_refined_d 0.01
r_angle_refined_deg 1.228
r_dihedral_angle_2_deg 36.415
r_dihedral_angle_4_deg 17.81
r_dihedral_angle_1_deg 5.949
r_mcangle_it 0.661
r_chiral_restr 0.086
r_gen_planes_refined 0.004
r_nbtor_refined 0.306
r_xyhbond_nbd_refined 0.153
r_symmetry_vdw_refined 0.204
r_mcbond_it 0.375
r_scbond_it 0.725
r_symmetry_hbond_refined 0.144
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 19770
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 0

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
MOLREP phasing
REFMAC refinement version: 5.2.0003
PDB_EXTRACT data extraction version: 3.004
ADSC data collection version: Quantum