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PII-like protein CutA from Nostoc sp. PCC 7120 in apo form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1V6H
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293.15 0.1 M Bis-Tris pH 6.5, 2 M Ammonium sulphate.
Crystal Properties Matthews coefficient Solvent content 1.88 34.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.133 α = 90 b = 90.694 β = 90 c = 93.707 γ = 90
Symmetry Space Group P 21 21 21
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 PILATUS 6M-F 2017-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1 SLS X10SA
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 1.9 46.854 99.7 0.099 0.999 13.4 6.55 42415
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2.01 97.9 0.749 6.34
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1V6H 1.9 46.85 42404 2121 99.629 0.2 0.1985 0.1987 0.2258 0.2255 37.74
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] -1.226 -0.653 1.879
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.078 r_dihedral_angle_4_deg 18.127 r_dihedral_angle_3_deg 13.797 r_dihedral_angle_1_deg 6.716 r_lrange_it 6.638 r_lrange_other 6.624 r_scangle_it 5.053 r_scangle_other 5.038 r_scbond_it 3.365 r_scbond_other 3.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.078 r_dihedral_angle_4_deg 18.127 r_dihedral_angle_3_deg 13.797 r_dihedral_angle_1_deg 6.716 r_lrange_it 6.638 r_lrange_other 6.624 r_scangle_it 5.053 r_scangle_other 5.038 r_scbond_it 3.365 r_scbond_other 3.35 r_mcangle_it 2.489 r_mcangle_other 2.489 r_angle_refined_deg 1.801 r_mcbond_it 1.773 r_mcbond_other 1.768 r_angle_other_deg 1.591 r_nbd_other 0.341 r_symmetry_nbd_refined 0.33 r_symmetry_xyhbond_nbd_refined 0.237 r_nbd_refined 0.23 r_symmetry_nbd_other 0.185 r_nbtor_refined 0.183 r_xyhbond_nbd_refined 0.168 r_symmetry_xyhbond_nbd_other 0.13 r_xyhbond_nbd_other 0.115 r_chiral_restr 0.107 r_ncsr_local_group_1 0.1 r_ncsr_local_group_4 0.099 r_ncsr_local_group_8 0.094 r_ncsr_local_group_7 0.091 r_symmetry_nbtor_other 0.089 r_ncsr_local_group_6 0.086 r_ncsr_local_group_13 0.083 r_ncsr_local_group_15 0.082 r_ncsr_local_group_2 0.079 r_ncsr_local_group_5 0.078 r_ncsr_local_group_11 0.077 r_ncsr_local_group_9 0.075 r_ncsr_local_group_10 0.074 r_ncsr_local_group_12 0.073 r_ncsr_local_group_3 0.072 r_ncsr_local_group_14 0.063 r_bond_refined_d 0.017 r_gen_planes_refined 0.012 r_bond_other_d 0.011 r_gen_planes_other 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4901 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing