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Full length Receptor Binding Protein from Lactococcal phage TP901-1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F0C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 300 nL of protein at 5 mg/mL were mixed with 100 nL of 20% PEG 8000, 0.2 M Mg Acetate tetrahydrate, 0.1 M Na Cacodylate pH 6.5 using a Cartesian Pixsys Robot, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.16 43.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.71 α = 90 b = 41.71 β = 90 c = 465.25 γ = 120
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 4 2008-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.85 30 99.9 0.103 5.6 5.5 14330 14190 15.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.95 99.9 0.41 1.7 5.8 2025
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2f0c 1.85 28.54 12762 12762 1427 99.94 0.19673 0.19224 0.23844 RANDOM 3.853
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] -0.32 -0.16 -0.32 0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.63 r_dihedral_angle_4_deg 21.804 r_dihedral_angle_3_deg 16.462 r_dihedral_angle_1_deg 6.053 r_scangle_it 2.675 r_scbond_it 1.749 r_angle_refined_deg 1.303 r_angle_other_deg 0.837 r_mcangle_it 0.777 r_mcbond_it 0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.63 r_dihedral_angle_4_deg 21.804 r_dihedral_angle_3_deg 16.462 r_dihedral_angle_1_deg 6.053 r_scangle_it 2.675 r_scbond_it 1.749 r_angle_refined_deg 1.303 r_angle_other_deg 0.837 r_mcangle_it 0.777 r_mcbond_it 0.62 r_symmetry_vdw_other 0.257 r_nbd_refined 0.22 r_nbd_other 0.209 r_symmetry_vdw_refined 0.205 r_symmetry_hbond_refined 0.192 r_xyhbond_nbd_refined 0.189 r_nbtor_refined 0.173 r_mcbond_other 0.09 r_nbtor_other 0.089 r_chiral_restr 0.077 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1204 Nucleic Acid Atoms Solvent Atoms 138 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling