X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 273.0
Details 2.3 M lithium sulfate, Tris-HCl (100 mM, pH 8.0), polyethylene glycol 400 (2%) and beta-mercaptoethanol (10 mM), VAPOR DIFFUSION, HANGING DROP, temperature 273K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.98 α = 90
b = 99.98 β = 90
c = 62.95 γ = 90
Symmetry
Space Group P 42 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2003-01-01
Diffraction Radiation
Monochromator Protocol
mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.0 ALS 8.3.1

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
2.3 100 99.9 0.067 0.067 -- 7.7 -- 14724 0.0 3.0 --
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)
2.3 2.42 100.0 0.267 0.267 2.5 7.6 2101

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 2.3 35.36 3.0 0.0 -- 14689 739 99.94 0.214 0.214 0.212 0.25 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 2.3 2.36 15926 67 995 0.209 0.257 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.699
Anisotropic B[1][1] -0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.1
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 7.182
r_symmetry_hbond_refined 0.13
r_mcbond_it 0.948
r_chiral_restr 0.106
r_scbond_it 2.02
r_gen_planes_refined 0.006
r_mcangle_it 1.63
r_dihedral_angle_3_deg 15.76
r_nbtor_refined 0.302
r_xyhbond_nbd_refined 0.162
r_symmetry_vdw_refined 0.122
r_bond_refined_d 0.013
r_nbd_refined 0.147
r_dihedral_angle_4_deg 18.294
r_dihedral_angle_2_deg 37.223
r_angle_refined_deg 1.574
r_scangle_it 3.016
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2403
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 35

Software

Software
Software Name Purpose
SCALA data scaling
AMoRE phasing
REFMAC refinement version: 5.2.0005
PDB_EXTRACT data extraction version: 1.700
MOSFLM data reduction
CCP4 data scaling version: (SCALA)