X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 285.0
Details 0.16M ammonium sulfate, 0.08M Sodium acetate, 20% PEG 4000, 15% glycerol, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 285K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 44.35 α = 69.97
b = 56.53 β = 85.56
c = 76.62 γ = 72.74
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 90
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH Mirrors 2002-08-01
Diffraction Radiation
Monochromator Protocol
Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 1.5418 -- --

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
1.72 23 92.8 0.063 0.053 -- 7.0 70685 65586 -- 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)
1.72 1.78 81.5 0.241 0.26 5.1 3.0 5781

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 1.72 24.92 -- 0.0 65586 62269 3316 92.79 0.2378 0.20115 0.19917 0.23896 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 1.72 1.84 -- 553 10324 0.278 0.351 -- 85.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.584
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] -0.71
Anisotropic B[1][3] 2.03
Anisotropic B[2][2] 0.13
Anisotropic B[2][3] -0.6
Anisotropic B[3][3] 0.4
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 7.15
r_angle_refined_deg 2.18
r_mcbond_it 1.386
r_symmetry_hbond_refined 0.488
r_bond_other_d 0.002
r_nbd_refined 0.239
r_scangle_it 6.334
r_chiral_restr 0.131
r_symmetry_vdw_refined 0.499
r_symmetry_vdw_other 0.375
r_angle_other_deg 0.95
r_xyhbond_nbd_refined 0.288
r_scbond_it 3.947
r_nbd_other 0.252
r_nbtor_other 0.09
r_bond_refined_d 0.023
r_mcangle_it 2.479
r_gen_planes_refined 0.009
r_gen_planes_other 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4205
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 647

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
CNS refinement
BEAST model building
AMoRE phasing
EPMR phasing
REFMAC refinement version: 5.1.24
CNS phasing
BEAST phasing