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Structure of Streptococcus gordonii inorganic pyrophosphatase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, STREAK SEEDING 5.6 293 sodium citrate, ammonium sulphate, K/Na-tartrate, pH 5.6, VAPOR DIFFUSION, SITTING DROP, STREAK SEEDING, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.3 47.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.08 α = 90 b = 148.96 β = 90 c = 43.72 γ = 90
Symmetry Space Group P 21 21 2
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 MARRESEARCH 2003-08-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 0.879 EMBL/DESY, HAMBURG BW7A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.05 20 97.8 40182 40182 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.1 97.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.05 19.69 38171 38171 2010 100 0.16912 0.16912 0.16658 0.1713 0.21647 0.2212 RANDOM 22.56
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] 1.25 -1.35 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.889 r_scangle_it 4.093 r_scbond_it 2.544 r_angle_refined_deg 1.535 r_mcangle_it 1.494 r_mcbond_it 0.855 r_nbd_refined 0.18 r_symmetry_vdw_refined 0.18 r_symmetry_hbond_refined 0.157 r_xyhbond_nbd_refined 0.124
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.889 r_scangle_it 4.093 r_scbond_it 2.544 r_angle_refined_deg 1.535 r_mcangle_it 1.494 r_mcbond_it 0.855 r_nbd_refined 0.18 r_symmetry_vdw_refined 0.18 r_symmetry_hbond_refined 0.157 r_xyhbond_nbd_refined 0.124 r_chiral_restr 0.111 r_metal_ion_refined 0.111 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4704 Nucleic Acid Atoms Solvent Atoms 536 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling CNS phasing