☰ Navigation Tabs
Crystal Structure of E.coli transthyretin-related protein with bound Zn
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F41
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 25% PEG 550 MME, 100mM MES, 10mM ZnSO4, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.25 45.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.97 α = 90 b = 92.67 β = 103.86 c = 58.05 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 MARRESEARCH 2001-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 0.8033 EMBL/DESY, HAMBURG X13
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 1.65 17.05 80 0.052 22.6 44377 44377
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) 1 1.65 1.69 90.3 0.604 2.4
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 1F41 1.65 17.05 41300 41300 2197 78.48 0.20017 0.20017 0.19836 0.209 0.23424 0.2445 RANDOM 15.515
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] -0.03 0.03 0.04 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.485 r_scangle_it 2.288 r_scbond_it 1.549 r_angle_refined_deg 1.226 r_mcangle_it 0.826 r_angle_other_deg 0.735 r_mcbond_it 0.461 r_symmetry_vdw_refined 0.301 r_nbd_other 0.238 r_symmetry_vdw_other 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.485 r_scangle_it 2.288 r_scbond_it 1.549 r_angle_refined_deg 1.226 r_mcangle_it 0.826 r_angle_other_deg 0.735 r_mcbond_it 0.461 r_symmetry_vdw_refined 0.301 r_nbd_other 0.238 r_symmetry_vdw_other 0.21 r_metal_ion_refined 0.182 r_nbd_refined 0.17 r_xyhbond_nbd_refined 0.134 r_symmetry_hbond_refined 0.105 r_nbtor_other 0.083 r_chiral_restr 0.077 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3618 Nucleic Acid Atoms Solvent Atoms 271 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement