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CRYSTAL STRUCTURE OF A PUTATIVE ENDORIBONUCLEASE (TM0215) FROM THERMOTOGA MARITIMA MSB8 AT 2.30 A RESOLUTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other 1qahA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 7.3 293 0.2 M Ca Acetate, 20.0% PEG 3350, No Buffer, pH 7.3, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.98 37.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.28 α = 90 b = 53.28 β = 90 c = 228.41 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 MARMOSAIC 300 mm CCD PAIR OF BIMORPH KIRKPATRICK-BAEZ MIRRORS 2005-08-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D APS 23-ID-D
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 2.12 26.64 80.9 0.218 5.27 2.2 13161
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 2.12 2.2 67.3 0.901 1.76 1.15
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MR THROUGHOUT 1qahA 2.3 26.64 9833 504 96.07 0.202 0.199 0.202 0.261 0.2653 RANDOM 34.829
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] -2.66 -1.33 -2.66 3.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.118 r_dihedral_angle_4_deg 11.841 r_dihedral_angle_3_deg 10.414 r_scangle_it 4.013 r_dihedral_angle_1_deg 2.922 r_scbond_it 2.747 r_angle_refined_deg 1.412 r_mcangle_it 1.295 r_angle_other_deg 0.994 r_mcbond_it 0.858
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.118 r_dihedral_angle_4_deg 11.841 r_dihedral_angle_3_deg 10.414 r_scangle_it 4.013 r_dihedral_angle_1_deg 2.922 r_scbond_it 2.747 r_angle_refined_deg 1.412 r_mcangle_it 1.295 r_angle_other_deg 0.994 r_mcbond_it 0.858 r_symmetry_metal_ion_refined 0.206 r_mcbond_other 0.19 r_symmetry_hbond_refined 0.174 r_nbtor_refined 0.165 r_nbd_refined 0.161 r_xyhbond_nbd_refined 0.153 r_nbd_other 0.14 r_metal_ion_refined 0.128 r_symmetry_vdw_refined 0.12 r_symmetry_vdw_other 0.115 r_chiral_restr 0.081 r_nbtor_other 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1937 Nucleic Acid Atoms Solvent Atoms 80 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction MOLREP phasing