X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 291.0
Details PEG 3350, MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.3 α = 90
b = 134.62 β = 110.51
c = 64.87 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH cyllindrical mirror and triangular bent single crystal monochromator. --
Diffraction Radiation
Monochromator Protocol
triangular bent single crystal monochromator. SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.38 LNLS D03B-MX1

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 13 91.8 0.047 -- -- 1.55 -- 40782 0.0 0.0 --
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 2.0 -- 0.325 -- 2.4 -- --

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 12.97 -- -- -- 38737 2045 91.83 -- 0.13176 0.12969 0.17125 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 -- 159 2839 0.168 0.197 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 18.58
Anisotropic B[1][1] 0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.01
Anisotropic B[2][2] -0.04
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.01
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.228
r_gen_planes_refined 0.01
r_chiral_restr 0.203
r_dihedral_angle_4_deg 13.248
r_dihedral_angle_3_deg 17.165
r_dihedral_angle_2_deg 40.327
r_dihedral_angle_1_deg 5.796
r_angle_refined_deg 2.097
r_bond_refined_d 0.027
r_xyhbond_nbd_refined 0.16
r_symmetry_vdw_refined 0.291
r_symmetry_hbond_refined 0.368
r_mcbond_it 1.059
r_mcangle_it 1.87
r_scbond_it 3.328
r_scangle_it 5.536
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4862
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 329

Software

Computing
Computing Package Purpose
MAR Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.09 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.09 refinement
AMoRE model building
SCALEPACK data reduction
MAR data collection