X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details PROTEIN WAS CRYSTALLIZED FROM 20% PEG 8000, 0.2 M MAGNESIUM ACETATE AND 0.1 M SODIUM CACODYLATE PH 6.5.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.08 α = 90
b = 69.83 β = 90
c = 87.18 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 2007-03-22
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
1.85 27.83 95.5 0.04 -- -- 4.7 -- 23537 -- 2.2 --
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)
1.85 1.95 79.5 0.52 -- 2.2 4.1 --

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 1.85 27.83 -- -- -- 22311 1187 95.19 -- 0.19358 0.19146 0.23314 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 1.85 1.898 -- 60 1195 0.32 0.401 -- 69.76
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 37.187
Anisotropic B[1][1] -2.15
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.24
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.39
RMS Deviations
Key Refinement Restraint Deviation
r_xyhbond_nbd_refined 0.129
r_bond_refined_d 0.01
r_bond_other_d 0.001
r_angle_other_deg 0.901
r_nbtor_refined 0.169
r_chiral_restr 0.071
r_gen_planes_refined 0.004
r_nbd_other 0.177
r_symmetry_vdw_refined 0.112
r_gen_planes_other 0.001
r_dihedral_angle_3_deg 14.367
r_dihedral_angle_1_deg 5.258
r_mcbond_other 0.367
r_nbtor_other 0.084
r_scbond_it 1.241
r_angle_refined_deg 1.148
r_symmetry_hbond_refined 0.164
r_dihedral_angle_2_deg 36.481
r_mcangle_it 1.886
r_mcbond_it 1.579
r_dihedral_angle_4_deg 18.05
r_nbd_refined 0.211
r_symmetry_vdw_other 0.197
r_scangle_it 1.731
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1831
Nucleic Acid Atoms 0
Heterogen Atoms 16
Solvent Atoms 204

Software

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