X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.8
Temperature 293.0
Details 0.4 M Ammonium Sulfate, 0.1 M Sodium Citrate, 1.2 M Lithium Sulfate, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 111.5 α = 90
b = 111.5 β = 90
c = 56.53 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
-- -- -- 2003-02-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 0.993 ESRF ID14-2

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
2.75 35 99.9 -- 0.056 -- 5.1 10793 10782 -- -- 97.65
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)
2.75 2.9 99.7 -- 0.508 2.7 4.8 1551

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 2.75 32.21 -- 0.0 10128 10118 656 99.9 0.21173 0.21173 0.20792 0.27069 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 2.75 2.821 -- 48 735 0.357 0.449 -- 99.37
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 77.147
Anisotropic B[1][1] 0.34
Anisotropic B[1][2] 0.17
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.34
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.51
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.316
r_bond_refined_d 0.015
r_gen_planes_refined 0.006
r_symmetry_vdw_refined 0.215
r_chiral_restr 0.114
r_mcangle_it 1.535
r_nbd_refined 0.227
r_dihedral_angle_3_deg 19.162
r_xyhbond_nbd_refined 0.179
r_dihedral_angle_4_deg 19.232
r_dihedral_angle_1_deg 7.293
r_nbtor_refined 0.314
r_angle_refined_deg 1.779
r_scangle_it 3.503
r_mcbond_it 1.19
r_dihedral_angle_2_deg 34.274
r_scbond_it 2.441
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2022
Nucleic Acid Atoms 0
Heterogen Atoms 80
Solvent Atoms 9

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
AMoRE phasing
REFMAC refinement version: 5.2
MOSFLM data reduction
SCALA data scaling