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Histidine-containing phosphotransfer protein from Chaetomium termophilum mutant H105E
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8PBW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 500 mM Ammonium dihydrogen Phosphate
200 mM Sodium Citrate
Crystal Properties Matthews coefficient Solvent content 2.55 51.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.575 α = 90 b = 100.575 β = 90 c = 65.274 γ = 120
Symmetry Space Group P 64 2 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 EIGER X 16M 2023-10-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97918 Diamond I03
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 2.4 87.1 100 0.2 0.203 0.028 1 27.5 51.2 8055
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 2.4 2.49 0.799
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 (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 2.4 87.1 7648 389 100 0.21371 0.21111 0.214 0.26419 0.2653 RANDOM 52.868
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] 1.11 0.56 1.11 -3.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.946 r_long_range_B_other 9.542 r_long_range_B_refined 9.541 r_scangle_other 7.902 r_mcangle_it 5.337 r_mcangle_other 5.333 r_dihedral_angle_1_deg 5.094 r_scbond_it 4.828 r_scbond_other 4.824 r_mcbond_it 3.482
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.946 r_long_range_B_other 9.542 r_long_range_B_refined 9.541 r_scangle_other 7.902 r_mcangle_it 5.337 r_mcangle_other 5.333 r_dihedral_angle_1_deg 5.094 r_scbond_it 4.828 r_scbond_other 4.824 r_mcbond_it 3.482 r_mcbond_other 3.477 r_dihedral_angle_2_deg 2.628 r_angle_refined_deg 1.141 r_angle_other_deg 0.386 r_chiral_restr 0.05 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 1004 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction PHASER phasing