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TtX183A - A c-type cytochrome domain from the Teredinibacter turnerae protein TERTU_2913
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 20-25 % (w/v) PEG 6000, 1 M LiCl2 and 0.1 M Citrate pH 4.0
Crystal Properties Matthews coefficient Solvent content 3.35 63.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.669 α = 90 b = 92.669 β = 90 c = 92.669 γ = 90
Symmetry Space Group P 41 3 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 PIXEL DECTRIS PILATUS3 2M 2017-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.966 ESRF MASSIF-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.4 65.53 100 0.125 0.129 0.029 1 22.5 36.9 27430
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 3.874 3.976 0.894 0.629 37.5
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.4 65.53 27351 1355 99.923 0.166 0.1645 0.1604 0.193 0.1889 19.5
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.718 r_dihedral_angle_3_deg 15.241 r_dihedral_angle_2_deg 13.337 r_lrange_it 12.77 r_lrange_other 11.932 r_scangle_it 8.016 r_scangle_other 8.008 r_mcangle_other 6.895 r_mcangle_it 6.88 r_dihedral_angle_1_deg 5.855
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.718 r_dihedral_angle_3_deg 15.241 r_dihedral_angle_2_deg 13.337 r_lrange_it 12.77 r_lrange_other 11.932 r_scangle_it 8.016 r_scangle_other 8.008 r_mcangle_other 6.895 r_mcangle_it 6.88 r_dihedral_angle_1_deg 5.855 r_scbond_it 5.457 r_scbond_other 5.442 r_mcbond_it 4.469 r_mcbond_other 4.39 r_rigid_bond_restr 3.032 r_angle_refined_deg 2.543 r_angle_other_deg 0.806 r_nbd_refined 0.35 r_symmetry_nbd_other 0.196 r_nbd_other 0.196 r_symmetry_nbd_refined 0.192 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.164 r_chiral_restr 0.081 r_symmetry_nbtor_other 0.079 r_symmetry_xyhbond_nbd_refined 0.079 r_chiral_restr_other 0.034 r_gen_planes_refined 0.03 r_bond_refined_d 0.017 r_gen_planes_other 0.016 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 561 Nucleic Acid Atoms Solvent Atoms 60 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement REFMAC refinement Aimless data scaling SHELX phasing XDS data reduction