☰ Navigation Tabs
Structure of KIT V654A mutant with Compound 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1T46
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 285 10% 2-propanol, 100 mM Na-Citrate pH 5.0, 8% PEG 4000
Crystal Properties Matthews coefficient Solvent content 1.95 36.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.3 α = 90 b = 56.3 β = 90 c = 202.722 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 103 PIXEL DECTRIS EIGER X 16M 2025-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.8856 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.54 54.25 55.7 1 12.1 25.7 27422
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.54 1.75 0.74
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.543 54.247 27422 1395 55.68 0.167 0.1646 0.1787 0.2062 0.2177 23.78
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] 0.079 0.079 -0.157
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.939 r_dihedral_angle_3_deg 10.341 r_lrange_it 7.94 r_lrange_other 7.281 r_dihedral_angle_1_deg 6.281 r_dihedral_angle_2_deg 4.404 r_scangle_it 4.1 r_scangle_other 4.099 r_mcangle_it 3.349 r_mcangle_other 3.348
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.939 r_dihedral_angle_3_deg 10.341 r_lrange_it 7.94 r_lrange_other 7.281 r_dihedral_angle_1_deg 6.281 r_dihedral_angle_2_deg 4.404 r_scangle_it 4.1 r_scangle_other 4.099 r_mcangle_it 3.349 r_mcangle_other 3.348 r_scbond_it 2.386 r_scbond_other 2.385 r_mcbond_it 2.014 r_mcbond_other 2.004 r_angle_refined_deg 0.985 r_angle_other_deg 0.372 r_nbd_refined 0.199 r_nbtor_refined 0.175 r_symmetry_nbd_other 0.173 r_nbd_other 0.152 r_xyhbond_nbd_refined 0.134 r_symmetry_xyhbond_nbd_refined 0.115 r_symmetry_nbd_refined 0.113 r_symmetry_nbtor_other 0.076 r_chiral_restr 0.051 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2495 Nucleic Acid Atoms Solvent Atoms 488 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction SCALA data scaling REFMAC phasing