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Crystal structure of uncharacterized protein from Pseudomonas phage YuA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 0.1 M SPG, 25 % Peg3350, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.13 42.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.059 α = 90 b = 59.745 β = 103.98 c = 38.154 γ = 90
Symmetry Space Group P 1 21 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 315r mirrors 2010-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9794 APS 19-ID
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 1.3 40 97.5 0.09 29 3.7 40040 39941 2 2
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) 1.3 1.35 95.3 0.45 2.8 3.5 3893
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.3 23.23 2 2 39897 37882 2015 97.21 0.18 0.17708 0.17553 0.1765 0.20477 0.2041 RANDOM 15.953
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] -0.11 -0.05 -0.08 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.514 r_dihedral_angle_4_deg 12.005 r_dihedral_angle_3_deg 11.678 r_dihedral_angle_1_deg 5.668 r_scangle_it 3.723 r_scbond_it 2.57 r_mcangle_it 1.82 r_angle_refined_deg 1.26 r_rigid_bond_restr 1.165 r_mcbond_it 1.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.514 r_dihedral_angle_4_deg 12.005 r_dihedral_angle_3_deg 11.678 r_dihedral_angle_1_deg 5.668 r_scangle_it 3.723 r_scbond_it 2.57 r_mcangle_it 1.82 r_angle_refined_deg 1.26 r_rigid_bond_restr 1.165 r_mcbond_it 1.103 r_chiral_restr 0.075 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1307 Nucleic Acid Atoms Solvent Atoms 306 Heterogen Atoms
Software Software Software Name Purpose SBC-Collect data collection HKL-3000 phasing SHELX model building ARP/wARP model building REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling SHELX phasing