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Structure of E.coli GlpG in complex with peptide derived inhibitor Ac-RVRHA-cmk
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XOV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295 2M Sodium cholride
Crystal Properties Matthews coefficient Solvent content 3.5 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.159 α = 90 b = 111.159 β = 90 c = 124.553 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-F 2015-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9794 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.95 44.9 99.6 0.031 0.998 24.5 6.5 21621
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2 95.5 1 0.593 1.6 6
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 2XOV 1.95 44.9 20568 1049 99.61 0.20075 0.19958 0.2069 0.22507 0.225 RANDOM 53.27
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] -0.49 -0.25 -0.49 1.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.037 r_dihedral_angle_3_deg 11.18 r_long_range_B_other 8.889 r_long_range_B_refined 8.887 r_scangle_other 7.064 r_dihedral_angle_4_deg 6.922 r_dihedral_angle_1_deg 5.213 r_scbond_it 4.78 r_scbond_other 4.777 r_mcangle_other 4.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.037 r_dihedral_angle_3_deg 11.18 r_long_range_B_other 8.889 r_long_range_B_refined 8.887 r_scangle_other 7.064 r_dihedral_angle_4_deg 6.922 r_dihedral_angle_1_deg 5.213 r_scbond_it 4.78 r_scbond_other 4.777 r_mcangle_other 4.2 r_mcangle_it 4.197 r_mcbond_it 3.391 r_mcbond_other 3.376 r_angle_refined_deg 1.307 r_angle_other_deg 0.897 r_chiral_restr 0.079 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 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 1467 Nucleic Acid Atoms Solvent Atoms 29 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling Aimless data scaling PHASER phasing