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Y830A mutant from Mycoplasma genitalium P110 adhesin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6R3T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 23 % PEG 3350
0.2 M Tri-potassium citrate
Crystal Properties Matthews coefficient Solvent content 3.69 66.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.322 α = 90 b = 153.117 β = 90 c = 169.902 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 98 PIXEL DECTRIS PILATUS 6M 2019-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.97926 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.21 91.93 98.8 0.058 0.99 12.5 4.6 70593
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.21 2.24 99 1.55 0.49 0.6
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6R3T 2.21 32.3 70569 3570 98.8 0.194 0.192 0.205 0.227 0.2407 RANDOM 85.63
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] 28.0684 -14.8635 -13.205
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 19.92 t_omega_torsion 3.12 t_angle_deg 1.22 t_bond_d 0.01 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 19.92 t_omega_torsion 3.12 t_angle_deg 1.22 t_bond_d 0.01 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_pseud_angle t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6807 Nucleic Acid Atoms Solvent Atoms 291 Heterogen Atoms 1
Software Software Software Name Purpose BUSTER refinement PDB_EXTRACT data extraction XDS data reduction autoPROC data scaling PHASER phasing