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 (RAXIS IV) RIGAKU 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_scangle_it 1.97
r_scbond_it 1.338
r_mcangle_it 2.07
r_mcbond_other 0.394
r_mcbond_it 1.747
r_nbd_refined 0.197
r_gen_planes_other 0.001
r_gen_planes_refined 0.004
r_chiral_restr 0.076
r_dihedral_angle_4_deg 18.932
r_dihedral_angle_3_deg 13.612
r_dihedral_angle_2_deg 37.986
r_dihedral_angle_1_deg 5.73
r_angle_other_deg 0.986
r_angle_refined_deg 1.247
r_bond_other_d 0.001
r_bond_refined_d 0.012
r_nbd_other 0.184
r_nbtor_refined 0.166
r_nbtor_other 0.082
r_xyhbond_nbd_refined 0.133
r_symmetry_vdw_refined 0.192
r_symmetry_vdw_other 0.189
r_symmetry_hbond_refined 0.199
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

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
MOLREP model building