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 (RAXIS IV) RIGAKU 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_scangle_it 1.731
r_scbond_it 1.241
r_mcangle_it 1.886
r_mcbond_other 0.367
r_mcbond_it 1.579
r_nbd_refined 0.211
r_gen_planes_other 0.001
r_gen_planes_refined 0.004
r_chiral_restr 0.071
r_dihedral_angle_4_deg 18.05
r_dihedral_angle_3_deg 14.367
r_dihedral_angle_2_deg 36.481
r_dihedral_angle_1_deg 5.258
r_angle_other_deg 0.901
r_angle_refined_deg 1.148
r_bond_other_d 0.001
r_bond_refined_d 0.01
r_nbd_other 0.177
r_nbtor_refined 0.169
r_nbtor_other 0.084
r_xyhbond_nbd_refined 0.129
r_symmetry_vdw_refined 0.112
r_symmetry_vdw_other 0.197
r_symmetry_hbond_refined 0.164
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

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