☰ Navigation Tabs
Crystal structure of a protein with unknown function (YP_749275.1) from Shewanella Frigidimarina NCIMB 400 at 1.80 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.3 277 NANODROP, 0.2M Calcium acetate, 20.0% PEG-3350, No Buffer, pH 7.3, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.16 42.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.579 α = 90 b = 40.412 β = 92.23 c = 78.05 γ = 90
Symmetry Space Group C 1 2 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2007-01-07 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837, 0.97910, 0.97879 SSRL BL11-1
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 1.8 28.571 96.5 0.056 0.056 13.6 3.8 22625 24.85
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 1.8 1.85 95.3 0.653 0.653 2.1 3.8 1640
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 (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 MAD THROUGHOUT 1.8 28.571 22625 1162 96.02 0.186 0.186 0.183 0.1877 0.233 0.2403 RANDOM 29.171
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] -2.16 -1.2 2.58 -0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.917 r_dihedral_angle_4_deg 13.645 r_dihedral_angle_3_deg 11.623 r_scangle_it 5.68 r_dihedral_angle_1_deg 4.704 r_scbond_it 4.445 r_mcangle_it 2.832 r_mcbond_it 2.073 r_angle_refined_deg 1.526 r_angle_other_deg 0.899
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.917 r_dihedral_angle_4_deg 13.645 r_dihedral_angle_3_deg 11.623 r_scangle_it 5.68 r_dihedral_angle_1_deg 4.704 r_scbond_it 4.445 r_mcangle_it 2.832 r_mcbond_it 2.073 r_angle_refined_deg 1.526 r_angle_other_deg 0.899 r_mcbond_other 0.524 r_symmetry_vdw_other 0.314 r_symmetry_vdw_refined 0.249 r_nbd_refined 0.209 r_nbd_other 0.199 r_nbtor_refined 0.184 r_xyhbond_nbd_refined 0.178 r_symmetry_hbond_refined 0.176 r_chiral_restr 0.086 r_nbtor_other 0.086 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1963 Nucleic Acid Atoms Solvent Atoms 224 Heterogen Atoms 24
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction CCP4 data scaling SHELXD phasing autoSHARP phasing