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Crystal structure of a domain from a mycoplasma genitalium terminal organelle protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 293 22% PEG 2000, 0.1 M SODIUM CITRATE, PH 4.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
Crystal Properties Matthews coefficient Solvent content 3.17 61.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.003 α = 90 b = 81.003 β = 90 c = 73.297 γ = 120
Symmetry Space Group P 31 2 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 2009-07-26 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 315r MIRRORS 2009-11-01 M SAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.979 ESRF ID14-4 2 SYNCHROTRON ESRF BEAMLINE ID14-4 0.979 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.9 30 74 0.067 0.066 32.7 10.5 6450 -3 70
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 2.9 3 90 0.498 0.393 5.2 10
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.9 27.18 6418 294 99.8 0.206 0.203 0.1996 0.26 0.258 RANDOM 62.51
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] 0.22 0.11 0.22 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.461 r_dihedral_angle_4_deg 31.237 r_dihedral_angle_3_deg 19.302 r_dihedral_angle_1_deg 7.571 r_scangle_it 3.086 r_scbond_it 1.902 r_angle_refined_deg 1.705 r_mcangle_it 1.356 r_angle_other_deg 0.935 r_mcbond_it 0.706
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.461 r_dihedral_angle_4_deg 31.237 r_dihedral_angle_3_deg 19.302 r_dihedral_angle_1_deg 7.571 r_scangle_it 3.086 r_scbond_it 1.902 r_angle_refined_deg 1.705 r_mcangle_it 1.356 r_angle_other_deg 0.935 r_mcbond_it 0.706 r_mcbond_other 0.131 r_chiral_restr 0.091 r_bond_refined_d 0.02 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 922 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose SHELXD phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling