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Crystal structure of Periplasmic divalent cation tolerance protein (TM1056) from Thermotoga maritima at 1.95 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 10.5 293 30% PEG-400, 0.1M CAPS pH 10.5, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.05 39.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.514 α = 90 b = 52.514 β = 90 c = 34.707 γ = 120
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 APS water cooled; sagitally focusing 2nd crystal, Rosenbaum-Rock vertical focusing mirror 2002-10-25 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97944, 0.97924, 0.95658 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.95 45.48 100 0.068 32.91 7.49 7337 41.58
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2.02 70.02 0.245 3.7 3.99 563
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-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.95 45.48 6993 339 93.94 0.15907 0.15603 0.1674 0.22061 0.2289 RANDOM 39.27
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] -2.39 -1.2 -2.39 3.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.307 r_dihedral_angle_4_deg 23.559 r_dihedral_angle_3_deg 16.609 r_scangle_it 7.133 r_dihedral_angle_1_deg 6.361 r_scbond_it 5.692 r_mcangle_it 3.116 r_mcbond_it 2.511 r_angle_refined_deg 1.441 r_angle_other_deg 0.804
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.307 r_dihedral_angle_4_deg 23.559 r_dihedral_angle_3_deg 16.609 r_scangle_it 7.133 r_dihedral_angle_1_deg 6.361 r_scbond_it 5.692 r_mcangle_it 3.116 r_mcbond_it 2.511 r_angle_refined_deg 1.441 r_angle_other_deg 0.804 r_xyhbond_nbd_refined 0.239 r_symmetry_hbond_refined 0.232 r_symmetry_vdw_other 0.214 r_nbd_refined 0.206 r_nbd_other 0.193 r_symmetry_vdw_refined 0.148 r_chiral_restr 0.097 r_nbtor_other 0.089 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 890 Nucleic Acid Atoms Solvent Atoms 74 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE model building REFMAC refinement RESOLVE phasing