☰ Navigation Tabs
Crystal structure of E51C/E54C Psaz from A.faecalis with CLaNP probe
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PAZ PDB entry 1PAZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 2.4M ammonium sulfate, 50mM sodium phosphate buffer, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.28 46.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.7 α = 90 b = 42.7 β = 90 c = 116.9 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 IMAGE PLATE MARRESEARCH Osmic confocal max-flux optical mirrors 2003-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300
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 2 37 99.2 0.057 25.3 4.2 39506 28.5
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) 2 2.07 99.1 0.34 5.4 4 815
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 PDB entry 1PAZ 2 37.01 6540 573 87.13 0.19614 0.19299 0.23182 RANDOM, EXCLUDING REFLECTIONS RELATED BY TWIN OPERATOR 28.29
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 0.06 0.11 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 13.784 r_scangle_it 4.357 r_scbond_it 2.791 r_angle_refined_deg 1.97 r_mcangle_it 1.431 r_mcbond_it 0.802 r_symmetry_vdw_refined 0.229 r_nbd_refined 0.21 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 13.784 r_scangle_it 4.357 r_scbond_it 2.791 r_angle_refined_deg 1.97 r_mcangle_it 1.431 r_mcbond_it 0.802 r_symmetry_vdw_refined 0.229 r_nbd_refined 0.21 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.108 r_symmetry_hbond_refined 0.055 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_symmetry_vdw_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 921 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing