X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 298.0
Details 12% PEG20000, 0.1M MES, pH6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 28.31 α = 61.75
b = 57.94 β = 76.53
c = 60.48 γ = 90.08
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate mirrors 2005-05-22
Diffraction Radiation
Monochromator Protocol
MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 1.5418 -- --

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
1.95 51.37 89.9 0.044 0.044 -- 2.0 42702 21394 -- -- --
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)
1.95 2.06 91.2 0.15 0.15 4.8 2.0 3159

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 1.95 20.0 -- 0.0 -- 21388 1102 89.99 -- 0.181 0.178 0.239 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 1.95 2.0 -- 82 1484 0.195 0.289 -- 90.99
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.185
Anisotropic B[1][1] 0.38
Anisotropic B[1][2] 0.08
Anisotropic B[1][3] 0.09
Anisotropic B[2][2] 0.03
Anisotropic B[2][3] -0.1
Anisotropic B[3][3] -0.37
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 13.877
r_chiral_restr 0.071
r_bond_refined_d 0.008
r_dihedral_angle_1_deg 5.268
r_mcangle_it 1.003
r_gen_planes_refined 0.004
r_scbond_it 1.493
r_scangle_it 2.464
r_angle_refined_deg 1.037
r_mcbond_it 0.538
r_dihedral_angle_2_deg 40.748
r_dihedral_angle_3_deg 13.753
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2761
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 359

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.2.25
MOLREP phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.006
MAR345dtb data collection