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A complex of GlpG with isocoumarin inhibitor covalently bonded to serine 201 and histidine 150
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XOV PDB ENTRY 2XOV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 2M AMMONIUM CHLORIDE, 0.1 M BIS-TRIS PH7.0, 298K
Crystal Properties Matthews coefficient Solvent content 3.5 64.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.109 α = 90 b = 111.109 β = 90 c = 126.067 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 PIXEL DECTRIS PILATUS 6M 2012-05-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
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 2.2 44.95 99.6 0.06 13.5 4.9 15318 47.4
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 2.2 2.32 98.1 0.48 3.1 4.9
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 2XOV 2.2 44.99 14556 761 99.33 0.21552 0.21386 0.2107 0.24703 0.2491 RANDOM 60
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] -1.3 -1.3 -1.3 4.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.937 r_dihedral_angle_3_deg 12.705 r_dihedral_angle_4_deg 7.983 r_long_range_B_refined 7.126 r_long_range_B_other 7.069 r_scangle_other 4.729 r_dihedral_angle_1_deg 4.641 r_mcangle_it 4.104 r_mcangle_other 4.104 r_scbond_it 2.958
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.937 r_dihedral_angle_3_deg 12.705 r_dihedral_angle_4_deg 7.983 r_long_range_B_refined 7.126 r_long_range_B_other 7.069 r_scangle_other 4.729 r_dihedral_angle_1_deg 4.641 r_mcangle_it 4.104 r_mcangle_other 4.104 r_scbond_it 2.958 r_scbond_other 2.957 r_mcbond_it 2.897 r_mcbond_other 2.894 r_angle_refined_deg 1.091 r_angle_other_deg 0.744 r_chiral_restr 0.061 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1426 Nucleic Acid Atoms Solvent Atoms 18 Heterogen Atoms 69
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing