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Crystal structure of dipicolinate synthase subunit A (NP_243269.1) from BACILLUS HALODURANS at 2.10 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 14.5% polyethylene glycol 3350, 0.279M di-sodium tartrate, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.47 50.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.65 α = 90 b = 142.42 β = 93.49 c = 74.86 γ = 90
Symmetry Space Group P 1 21 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 collimating mirror, toroid focusing mirror 2008-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
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 2.1 29.775 97.9 0.076 6.99 72049 -3 26.478
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 2.1 2.17 96 0.458 1.9
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 SAD THROUGHOUT 2.1 29.775 72015 3729 99.22 0.192 0.189 0.194 0.24 0.241 RANDOM 31.44
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] -1.07 -0.25 0.04 0.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.14 r_dihedral_angle_4_deg 12.494 r_dihedral_angle_3_deg 12.285 r_scangle_it 6.009 r_scbond_it 4.219 r_dihedral_angle_1_deg 3.448 r_mcangle_it 2.199 r_angle_refined_deg 1.618 r_angle_other_deg 1.533 r_mcbond_it 1.157
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.14 r_dihedral_angle_4_deg 12.494 r_dihedral_angle_3_deg 12.285 r_scangle_it 6.009 r_scbond_it 4.219 r_dihedral_angle_1_deg 3.448 r_mcangle_it 2.199 r_angle_refined_deg 1.618 r_angle_other_deg 1.533 r_mcbond_it 1.157 r_mcbond_other 0.265 r_chiral_restr 0.088 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8645 Nucleic Acid Atoms Solvent Atoms 632 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing