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Structural basis for the autoregulation of the zinc transporter YiiP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 see reference, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 80.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.657 α = 90 b = 130.704 β = 93.28 c = 115.757 γ = 90
Symmetry Space Group P 1 21 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 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD M SINGLE WAVELENGTH 3 1 x-ray 100 CCD M SINGLE WAVELENGTH 4 1 x-ray 100 CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.0 NSLS X25 2 SYNCHROTRON NSLS BEAMLINE X25 1.0 NSLS X25 3 SYNCHROTRON NSLS BEAMLINE X25 1.0 NSLS X25 4 SYNCHROTRON NSLS BEAMLINE X25 1.0 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1,2,3,4 2.9 50 92.7 0.059 18.6 3.6 70409 65270 2 2 70
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.9 3 54.3 0.424 1.4
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MIR THROUGHOUT 2.9 20 61831 3305 93.8 0.26127 0.2594 0.27677 0.2751 RANDOM 69.742
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] 1.35 0.99 -4.68 3.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.774 r_dihedral_angle_3_deg 23.05 r_dihedral_angle_4_deg 16.005 r_dihedral_angle_1_deg 7.169 r_mcangle_it 2.86 r_scangle_it 2.394 r_mcbond_it 1.587 r_angle_refined_deg 1.45 r_scbond_it 1.351 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.774 r_dihedral_angle_3_deg 23.05 r_dihedral_angle_4_deg 16.005 r_dihedral_angle_1_deg 7.169 r_mcangle_it 2.86 r_scangle_it 2.394 r_mcbond_it 1.587 r_angle_refined_deg 1.45 r_scbond_it 1.351 r_nbtor_refined 0.308 r_symmetry_vdw_refined 0.295 r_nbd_refined 0.24 r_xyhbond_nbd_refined 0.156 r_metal_ion_refined 0.138 r_chiral_restr 0.107 r_bond_refined_d 0.009 r_symmetry_hbond_refined 0.007 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8712 Nucleic Acid Atoms Solvent Atoms 265 Heterogen Atoms 24
Software Software Software Name Purpose HKL-2000 data collection SHARP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling