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CRYSTAL STRUCTURE OF A PUTATIVE SUPEROXIDE REDUCTASE (TM0658) FROM THERMOTOGA MARITIMA AT 2.00 A RESOLUTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DO6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 6 293 10.0% Glycerol, 5.0% PEG-1000, 30.0% PEG-600, 0.1M MES , pH 6.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 40.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.618 α = 90 b = 77.305 β = 90 c = 64.731 γ = 90
Symmetry Space Group I 2 2 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 MARMOSAIC 325 mm CCD 2005-07-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91162 SSRL BL9-2
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 2 28.07 88.8 0.072 0.072 8.6 3.2 8148
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) 1 2 2.05 54.7 0.401 0.401 1.9 1.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1do6 2 28.07 7762 385 88.17 0.149 0.147 0.202 0.2228 RANDOM 26.878
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] -1.28 1.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.423 r_dihedral_angle_4_deg 19.742 r_dihedral_angle_3_deg 13.95 r_dihedral_angle_1_deg 6.83 r_scangle_it 5.866 r_scbond_it 4.966 r_mcangle_it 2.788 r_mcbond_it 2.038 r_angle_refined_deg 1.743 r_angle_other_deg 1.284
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.423 r_dihedral_angle_4_deg 19.742 r_dihedral_angle_3_deg 13.95 r_dihedral_angle_1_deg 6.83 r_scangle_it 5.866 r_scbond_it 4.966 r_mcangle_it 2.788 r_mcbond_it 2.038 r_angle_refined_deg 1.743 r_angle_other_deg 1.284 r_mcbond_other 0.476 r_symmetry_vdw_refined 0.332 r_symmetry_vdw_other 0.256 r_chiral_restr 0.198 r_symmetry_hbond_refined 0.194 r_nbd_other 0.192 r_nbtor_refined 0.177 r_nbd_refined 0.174 r_xyhbond_nbd_refined 0.149 r_nbtor_other 0.09 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1052 Nucleic Acid Atoms Solvent Atoms 63 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction CCP4 data scaling MOLREP phasing