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Crystal structure of the CorA Mg2+ transporter
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BBH PDB ENTRY 2BBH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 297 20% PEG2000, 0.3M Mg(NO3)2, 0.1M Tris, pH8.0, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 3.81 67.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.979 α = 90 b = 173.181 β = 90 c = 134.179 γ = 90
Symmetry Space Group P 21 21 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 CCD ADSC QUANTUM 315 2005-02-23 M SINGLE WAVELENGTH 2 1 100 CCD ADSC QUANTUM 4 2005-02-25
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID 2 SYNCHROTRON APS BEAMLINE 19-ID 1.0 APS 19-ID
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 3.9 50 95.9 0.092 0.133 13.3 11.4 28963 28963
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) 3.9 4.04 77.2 0.42 0.787 1.23 6 2304
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 PDB ENTRY 2BBH 3.9 20 27320 27320 1424 97.39 0.36301 0.36301 0.36077 0.3468 0.40649 0.3929 RANDOM 162.504
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] 11.02 -19.56 8.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.13 r_dihedral_angle_3_deg 12.749 r_dihedral_angle_4_deg 8.164 r_dihedral_angle_1_deg 3.01 r_angle_refined_deg 1.172 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.224 r_scangle_it 0.204 r_nbd_refined 0.202 r_mcangle_it 0.195
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.13 r_dihedral_angle_3_deg 12.749 r_dihedral_angle_4_deg 8.164 r_dihedral_angle_1_deg 3.01 r_angle_refined_deg 1.172 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.224 r_scangle_it 0.204 r_nbd_refined 0.202 r_mcangle_it 0.195 r_xyhbond_nbd_refined 0.137 r_scbond_it 0.122 r_mcbond_it 0.108 r_chiral_restr 0.074 r_symmetry_hbond_refined 0.049 r_bond_refined_d 0.007 r_gen_planes_refined 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13810 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing