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Drosophila Peptidoglycan Recognition Protein (PGRP)-SA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OHT PDB ENTRY 1OHT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 295 1.3 to 1.5 M Li2SO4 and 0.1 M MES , pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.55 51.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.29 α = 90 b = 64.42 β = 100.33 c = 45.87 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 210 2003-09-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.069 ALS 8.2.1
Data Collection Overall ID # 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 1 1.56 45.13 99.4 0.056 0.056 10.7 3.6 54845 54845 17.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.56 1.62 94 0.451 0.451 2 2.5 5148
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1OHT 1.56 45 52381 52381 5275 94.3 0.181 0.181 0.177 0.183 0.211 RANDOM 18.4
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] -0.27 -0.52 -0.71 0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.267 r_dihedral_angle_4_deg 22.726 r_dihedral_angle_3_deg 12.734 r_dihedral_angle_1_deg 5.801 r_scangle_it 3.034 r_scbond_it 2.324 r_mcangle_it 1.387 r_angle_refined_deg 1.299 r_mcbond_it 0.928 r_symmetry_vdw_refined 0.237
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.267 r_dihedral_angle_4_deg 22.726 r_dihedral_angle_3_deg 12.734 r_dihedral_angle_1_deg 5.801 r_scangle_it 3.034 r_scbond_it 2.324 r_mcangle_it 1.387 r_angle_refined_deg 1.299 r_mcbond_it 0.928 r_symmetry_vdw_refined 0.237 r_nbd_refined 0.22 r_symmetry_hbond_refined 0.216 r_xyhbond_nbd_refined 0.165 r_chiral_restr 0.096 r_bond_refined_d 0.01 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2714 Nucleic Acid Atoms Solvent Atoms 388 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing