X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details PROTEIN WAS CRYSTALLIZED FROM 10% PEG 6000, 5% MPD, 0.1 M HEPES PH 7.5.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.03 α = 90
b = 69.3 β = 90
c = 89.27 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 277
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV OSMIC BLUE CONFOCAL MIRRORS 2006-10-20
Diffraction Radiation
Monochromator Protocol
OSMIC MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 -- -- --

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 27.68 100.0 0.07 -- -- 4.6 -- 21524 -- 1.9 --
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 2.06 100.0 0.66 -- 1.9 4.6 --

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 1.95 27.37 -- -- -- 20451 1070 100.0 -- 0.19734 0.19538 0.234 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 -- 61 1496 0.332 0.445 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.745
Anisotropic B[1][1] -1.86
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.03
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.82
RMS Deviations
Key Refinement Restraint Deviation
r_nbtor_refined 0.166
r_angle_refined_deg 1.247
r_nbd_refined 0.197
r_dihedral_angle_1_deg 5.73
r_mcbond_it 1.747
r_nbd_other 0.184
r_xyhbond_nbd_refined 0.133
r_angle_other_deg 0.986
r_symmetry_vdw_other 0.189
r_gen_planes_refined 0.004
r_bond_other_d 0.001
r_chiral_restr 0.076
r_dihedral_angle_4_deg 18.932
r_mcbond_other 0.394
r_dihedral_angle_3_deg 13.612
r_symmetry_vdw_refined 0.192
r_scbond_it 1.338
r_symmetry_hbond_refined 0.199
r_scangle_it 1.97
r_mcangle_it 2.07
r_nbtor_other 0.082
r_dihedral_angle_2_deg 37.986
r_gen_planes_other 0.001
r_bond_refined_d 0.012
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1850
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 159

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
MOSFLM data reduction
SCALA data scaling
MOLREP phasing