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Crystal Structure of the KIF5C Motor Domain With ADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2KIN PDB ENTRY 2KIN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 Ammonium sulfate, Sodium citrate, Glycerol, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.98 58.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.858 α = 90 b = 71.827 β = 90 c = 176.891 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 CCD ADSC QUANTUM 210 2008-12-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.00 Photon Factory AR-NW12A
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 50 99.5 0.049 14.6 6.8 25884 25753
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 98.4 0.798 6.3 2509
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB ENTRY 2KIN 2.7 20 25878 25646 1299 99.11 0.228 0.2244 0.2274 0.2978 0.2984 RANDOM 84.422
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 2.22 -3.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.69 r_dihedral_angle_4_deg 21.47 r_dihedral_angle_3_deg 21.064 r_mcangle_it 8.994 r_dihedral_angle_1_deg 6.991 r_mcbond_it 6.05 r_mcbond_other 6.037 r_angle_refined_deg 1.641 r_angle_other_deg 0.886 r_chiral_restr 0.092
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.69 r_dihedral_angle_4_deg 21.47 r_dihedral_angle_3_deg 21.064 r_mcangle_it 8.994 r_dihedral_angle_1_deg 6.991 r_mcbond_it 6.05 r_mcbond_other 6.037 r_angle_refined_deg 1.641 r_angle_other_deg 0.886 r_chiral_restr 0.092 r_bond_refined_d 0.011 r_bond_other_d 0.006 r_gen_planes_refined 0.006 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4996 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms 54
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing