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Crystal structure of metal-citrate-binding mutant (S164A) protein (MctA) of ABC transporter in apo state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7F6E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.5 293 0.01 M Co(II)Cl2 hexahydrate, 0.1 M MES monohydrate pH 6.5, 1.8 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.63 53.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.53 α = 90 b = 108.07 β = 90 c = 163.99 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 100 IMAGE PLATE RIGAKU RAXIS IV VariMax HF 2020-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 2.09 82.13 100 0.098 0.103 0.032 0.999 19.5 10 24055
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 2.09 2.15 100 0.449 0.474 0.152 0.929 9.5
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 7F6E 2.09 82.13 22957 1097 99.99 0.1586 0.1559 0.166 0.2141 0.2167 RANDOM 27.009
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] -0.63 0.4 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.584 r_dihedral_angle_4_deg 19.042 r_dihedral_angle_3_deg 14.488 r_dihedral_angle_1_deg 7.213 r_angle_refined_deg 1.948 r_angle_other_deg 1.502 r_chiral_restr 0.094 r_bond_refined_d 0.016 r_gen_planes_refined 0.012 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.584 r_dihedral_angle_4_deg 19.042 r_dihedral_angle_3_deg 14.488 r_dihedral_angle_1_deg 7.213 r_angle_refined_deg 1.948 r_angle_other_deg 1.502 r_chiral_restr 0.094 r_bond_refined_d 0.016 r_gen_planes_refined 0.012 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2656 Nucleic Acid Atoms Solvent Atoms 219 Heterogen Atoms 57
Software Software Software Name Purpose HKL-3000 data collection MOSFLM data reduction Aimless data scaling REFMAC phasing Coot model building REFMAC refinement PDB_EXTRACT data extraction