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Crystal structure of the motor domain of human kinesin family member 3C in complex with ADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1II6 PDB entry 1II6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 293 30% PEG MME550, 0.1M Ammonium sulfate, 0.1M Sodium cacodylate, pH 6.5, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.14 42.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.739 α = 90 b = 47.588 β = 103.16 c = 116.951 γ = 90
Symmetry Space Group C 1 2 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 CCD ADSC QUANTUM 315 2007-09-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1000 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.7 40 97.2 0.126 8.1 3.4 20103
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.8 82.4 0.47 2.5 1686
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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1II6 2.7 30 19837 726 97.2 0.205 0.202 0.2265 0.274 0.2861 thin shells 22.038
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] -1.1 0.73 -0.34 1.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.123 r_dihedral_angle_3_deg 15.758 r_dihedral_angle_4_deg 15.027 r_dihedral_angle_1_deg 6.253 r_mcangle_it 2.366 r_scangle_it 2.213 r_mcbond_it 1.579 r_scbond_it 1.498 r_angle_refined_deg 1.229 r_angle_other_deg 0.839
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.123 r_dihedral_angle_3_deg 15.758 r_dihedral_angle_4_deg 15.027 r_dihedral_angle_1_deg 6.253 r_mcangle_it 2.366 r_scangle_it 2.213 r_mcbond_it 1.579 r_scbond_it 1.498 r_angle_refined_deg 1.229 r_angle_other_deg 0.839 r_mcbond_other 0.301 r_symmetry_vdw_other 0.209 r_nbd_refined 0.203 r_symmetry_hbond_refined 0.185 r_nbd_other 0.184 r_nbtor_refined 0.174 r_symmetry_vdw_refined 0.157 r_xyhbond_nbd_refined 0.144 r_nbtor_other 0.084 r_chiral_restr 0.069 r_bond_refined_d 0.014 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4506 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms 64
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection