☰ Navigation Tabs
GID4 in complex with VGLWKS peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6CCR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 0.03 M Citric acid, pH 7.6 and 20% (w/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.05 40.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.781 α = 90 b = 40.648 β = 98.102 c = 56.319 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 PIXEL DECTRIS PILATUS 6M 2018-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97625 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.6 40.65 96.3 0.047 0.056 0.031 0.998 13.8 3.1 21226
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.62 68.5 0.588 0.787 0.518 0.658 1.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6CCR 1.6 36.403 21165 1049 96.481 0.187 0.1856 0.1888 0.2197 0.2184 21.394
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] 0.735 -0.739 -0.593 0.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.43 r_dihedral_angle_4_deg 24.686 r_dihedral_angle_3_deg 12.812 r_dihedral_angle_1_deg 7.805 r_lrange_it 5.03 r_lrange_other 5.015 r_scangle_it 3.836 r_scangle_other 3.835 r_mcangle_it 2.998 r_mcangle_other 2.997
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.43 r_dihedral_angle_4_deg 24.686 r_dihedral_angle_3_deg 12.812 r_dihedral_angle_1_deg 7.805 r_lrange_it 5.03 r_lrange_other 5.015 r_scangle_it 3.836 r_scangle_other 3.835 r_mcangle_it 2.998 r_mcangle_other 2.997 r_scbond_it 2.576 r_scbond_other 2.575 r_mcbond_it 1.985 r_mcbond_other 1.984 r_angle_refined_deg 1.67 r_angle_other_deg 1.458 r_nbd_refined 0.223 r_symmetry_nbd_other 0.194 r_nbtor_refined 0.184 r_nbd_other 0.142 r_symmetry_nbd_refined 0.141 r_xyhbond_nbd_refined 0.12 r_symmetry_xyhbond_nbd_refined 0.116 r_chiral_restr 0.084 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.01 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1353 Nucleic Acid Atoms Solvent Atoms 50 Heterogen Atoms 13
Software Software Software Name Purpose XDS data reduction Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing