7BY4

Tetanus neurotoxin receptor binding domain


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2930.1 M Bis-Tris pH 6.0, 0.1 M Pottasium chloride 22.5% PEG 4000
Crystal Properties
Matthews coefficientSolvent content
2.346.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 66.705α = 90
b = 79.387β = 90
c = 89.753γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2016-12-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL44XU0.987SPring-8BL44XU

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.55097.60.0730.0790.0326.96.775134
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.51.5389.40.4970.5620.2550.7952.434.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1AF91.544.4171315375097.560.1220.1220.1220.163Random24.12
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.01-0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.958
r_dihedral_angle_4_deg20.321
r_dihedral_angle_3_deg13.528
r_dihedral_angle_1_deg6.97
r_lrange_it5.045
r_scangle_it4.705
r_scbond_it3.709
r_rigid_bond_restr3.463
r_mcangle_it3.266
r_mcbond_it2.65
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.958
r_dihedral_angle_4_deg20.321
r_dihedral_angle_3_deg13.528
r_dihedral_angle_1_deg6.97
r_lrange_it5.045
r_scangle_it4.705
r_scbond_it3.709
r_rigid_bond_restr3.463
r_mcangle_it3.266
r_mcbond_it2.65
r_angle_refined_deg1.436
r_nbtor_refined0.319
r_metal_ion_refined0.292
r_symmetry_nbd_refined0.268
r_symmetry_xyhbond_nbd_refined0.232
r_nbd_refined0.221
r_xyhbond_nbd_refined0.155
r_chiral_restr0.106
r_bond_refined_d0.009
r_gen_planes_refined0.009
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3565
Nucleic Acid Atoms
Solvent Atoms522
Heterogen Atoms21

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
pointlessdata scaling
MOLREPphasing