3UIL

Crystal Structure of the complex of PGRP-S with lauric acid at 2.2 A resolution


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3C2X 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.229810% PEG 3350, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.4349.36

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 89α = 90
b = 101.61β = 90
c = 163.39γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray77CCDMARRESEARCHMirror2011-10-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE BM140.97ESRFBM14

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)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
12.286.392.20.0869.83325234.2
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.22.2692.10.4553.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT3C2X2.286.293325233252177492.220.23240.2270.2586RANDOM41.4233
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]
4.02-3.26-0.76
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.675
r_dihedral_angle_4_deg16.427
r_dihedral_angle_3_deg16.037
r_dihedral_angle_1_deg7.703
r_scangle_it4.828
r_scbond_it3.128
r_mcangle_it2.156
r_angle_refined_deg1.886
r_mcbond_it1.222
r_chiral_restr0.131
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.675
r_dihedral_angle_4_deg16.427
r_dihedral_angle_3_deg16.037
r_dihedral_angle_1_deg7.703
r_scangle_it4.828
r_scbond_it3.128
r_mcangle_it2.156
r_angle_refined_deg1.886
r_mcbond_it1.222
r_chiral_restr0.131
r_bond_refined_d0.023
r_gen_planes_refined0.012
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5347
Nucleic Acid Atoms
Solvent Atoms619
Heterogen Atoms20

Software

Software
Software NamePurpose
DENZOdata reduction
AMoREphasing
REFMACrefinement
AUTOMARdata reduction
SCALEPACKdata scaling