☰ Navigation Tabs
CRYSTAL STRUCTURE OF A MYO-INOSITOL-1-PHOSPHATE SYNTHASE-RELATED PROTEIN (TM_1419) FROM THERMOTOGA MARITIMA MSB8 AT 1.70 A RESOLUTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GR0 PDB entry 1GR0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 277 NANODROP, 0.2M MgCl2, 40.0% PEG 400, 0.1M Citrate pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.43 49.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.304 α = 90 b = 104.95 β = 90 c = 117.013 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 ADSC QUANTUM 210 KOHZU: Double Crystal Si(111) 2003-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.0000 ALS 8.2.1
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 1.7 41.135 93.2 0.05 21.9 2.9 43592 23.939
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 1.7 1.73 72.6 0.455 2.1 2.2 2238
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 (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 PDB entry 1GR0 1.7 41.135 43592 2181 92.68 0.161 0.16 0.1706 0.194 0.1686 RANDOM 27.035
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] -1.06 2.65 -1.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.215 r_dihedral_angle_4_deg 17.122 r_dihedral_angle_3_deg 14.116 r_scangle_it 7.257 r_dihedral_angle_1_deg 5.78 r_scbond_it 5.256 r_mcangle_it 3.261 r_mcbond_it 2.552 r_angle_refined_deg 1.711 r_angle_other_deg 0.998
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.215 r_dihedral_angle_4_deg 17.122 r_dihedral_angle_3_deg 14.116 r_scangle_it 7.257 r_dihedral_angle_1_deg 5.78 r_scbond_it 5.256 r_mcangle_it 3.261 r_mcbond_it 2.552 r_angle_refined_deg 1.711 r_angle_other_deg 0.998 r_mcbond_other 0.669 r_symmetry_vdw_refined 0.333 r_symmetry_vdw_other 0.284 r_nbd_refined 0.22 r_nbd_other 0.195 r_xyhbond_nbd_refined 0.186 r_nbtor_refined 0.184 r_symmetry_hbond_refined 0.159 r_chiral_restr 0.112 r_nbtor_other 0.089 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2956 Nucleic Acid Atoms Solvent Atoms 233 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement PHENIX refinement MolProbity model building SCALEPACK data scaling PDB_EXTRACT data extraction ADSC data collection DENZO data reduction MOLREP phasing