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Crystal Structure of the KIF2C motor domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1V8K PDB ENTRY 1V8K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 291 37% PEG400, 0.2M NaCl, 0.1M HEPES, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K, pH 7.00
Crystal Properties Matthews coefficient Solvent content 3.3 63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.72 α = 90 b = 79.72 β = 90 c = 154.885 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 100 CCD ADSC QUANTUM 210 2006-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID APS 17-ID
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 2.15 30 99.8 0.077 9.9 7.1 51791
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) 2.15 2.23 0.713 4
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1V8K 2.15 30 27850 1380 99.7 0.22126 0.22 0.254 0.2374 RANDOM 33.46
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] -0.012 -0.012 0.023
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.613 r_dihedral_angle_4_deg 17.716 r_dihedral_angle_3_deg 14.87 r_dihedral_angle_1_deg 6.129 r_mcangle_it 4.082 r_scangle_it 3.905 r_mcbond_it 2.858 r_scbond_it 2.783 r_angle_refined_deg 1.368 r_angle_other_deg 1.359
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.613 r_dihedral_angle_4_deg 17.716 r_dihedral_angle_3_deg 14.87 r_dihedral_angle_1_deg 6.129 r_mcangle_it 4.082 r_scangle_it 3.905 r_mcbond_it 2.858 r_scbond_it 2.783 r_angle_refined_deg 1.368 r_angle_other_deg 1.359 r_mcbond_other 0.484 r_symmetry_vdw_other 0.231 r_nbd_other 0.206 r_symmetry_vdw_refined 0.195 r_nbd_refined 0.193 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.116 r_symmetry_hbond_refined 0.103 r_chiral_restr 0.083 r_nbtor_other 0.079 r_metal_ion_refined 0.021 r_bond_refined_d 0.018 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2493 Nucleic Acid Atoms Solvent Atoms 47 Heterogen Atoms 38
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ARP/wARP model building MolProbity model building