☰ Navigation Tabs
ERK5 in complex with Pyrrole Carboxamide scaffold
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5O7I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 5 % (V/V) PEG 6000, 0.1 M MES (PH 6.0), 5 MM DTT
Crystal Properties Matthews coefficient Solvent content 2.91 57.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.671 α = 90 b = 91.671 β = 90 c = 113.81 γ = 90
Symmetry Space Group P 41 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 100 PIXEL DECTRIS PILATUS 6M 2015-05-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.9795 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.59 71.49 100 0.398 0.145 0.986 5.7 13.9 15740
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 2.59 71.39 100 0.114 0.123 0.045 0.983 11
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-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5O7I 2.59 71.49 15691 790 100 0.222 0.2192 0.2853 0.2786 59.589
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] 1.55 1.55 -3.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.603 r_dihedral_angle_4_deg 22.149 r_dihedral_angle_3_deg 16.831 r_lrange_it 15.093 r_scangle_it 10.901 r_mcangle_it 8.891 r_scbond_it 7.421 r_dihedral_angle_1_deg 6.205 r_mcbond_it 6.015 r_angle_refined_deg 1.672
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.603 r_dihedral_angle_4_deg 22.149 r_dihedral_angle_3_deg 16.831 r_lrange_it 15.093 r_scangle_it 10.901 r_mcangle_it 8.891 r_scbond_it 7.421 r_dihedral_angle_1_deg 6.205 r_mcbond_it 6.015 r_angle_refined_deg 1.672 r_nbtor_refined 0.313 r_symmetry_xyhbond_nbd_refined 0.268 r_symmetry_nbd_refined 0.218 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.119 r_chiral_restr 0.112 r_bond_refined_d 0.007 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2713 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement REFMAC refinement DIALS data reduction pointless data scaling PHASER phasing