7NSY

Drosophila PGRP-LB C160S mutant


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1OHT 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.2 M Sodium thiocyanate, 20%c w/v PEG 3350
Crystal Properties
Matthews coefficientSolvent content
1.9336.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.02α = 71.822
b = 49.187β = 79.001
c = 52.143γ = 66.84
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER2 XE 16M2019-04-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I040.979DiamondI04

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
11.449.3996.10.0330.0460.0330.99914.13.467209
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)
11.41.420.260.3680.260.8752.6

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-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE1OHT1.449.3967201336096.0440.1680.16660.187917.292
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]
-0.2250.1720.4760.718-0.003-0.437
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.152
r_dihedral_angle_4_deg16.627
r_dihedral_angle_3_deg10.488
r_dihedral_angle_1_deg6.705
r_lrange_it4.905
r_lrange_other4.818
r_scangle_it3.884
r_scangle_other3.884
r_scbond_it2.668
r_scbond_other2.667
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.152
r_dihedral_angle_4_deg16.627
r_dihedral_angle_3_deg10.488
r_dihedral_angle_1_deg6.705
r_lrange_it4.905
r_lrange_other4.818
r_scangle_it3.884
r_scangle_other3.884
r_scbond_it2.668
r_scbond_other2.667
r_mcangle_it2.194
r_mcangle_other2.193
r_angle_refined_deg1.906
r_mcbond_other1.581
r_mcbond_it1.58
r_angle_other_deg1.565
r_nbd_refined0.217
r_symmetry_nbd_refined0.187
r_symmetry_nbd_other0.183
r_nbtor_refined0.182
r_nbd_other0.155
r_chiral_restr0.11
r_symmetry_xyhbond_nbd_refined0.106
r_xyhbond_nbd_refined0.104
r_symmetry_nbtor_other0.081
r_ncsr_local_group_10.072
r_bond_refined_d0.014
r_gen_planes_refined0.012
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2583
Nucleic Acid Atoms
Solvent Atoms263
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
REFMACrefinement
Aimlessdata reduction
DIALSdata processing
Cootmodel building
GDAdata collection
Aimlessdata scaling
PHASERphasing