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Crystal structure of human kinesin Eg5 in complex with 2-Amino-5-(3-methylphenyl)-5,5-diphenylpentanoic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KEN PDB ENTRY 3KEN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 23 % POLYETHYLENE GLYCOL-3350, 0.25 M AMMONIUM SULPHATE AND 0.1 M MES PH 5.5
Crystal Properties Matthews coefficient Solvent content 4.06 69.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 158.54 α = 90 b = 158.54 β = 90 c = 158.54 γ = 90
Symmetry Space Group I 21 3
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 93 CCD MARMOSAIC 225 mm CCD 2010-11-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 2.75 30 99.8 0.08 12.2 5.8 17322 2
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 2.75 2.9 99.8 0.61 3.2 5.4
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3KEN 2.75 28.03 16381 890 99.56 0.19989 0.19759 0.1904 0.24301 0.2313 RANDOM 65.825
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.91 r_dihedral_angle_3_deg 19.485 r_dihedral_angle_4_deg 18.75 r_dihedral_angle_1_deg 7.279 r_scangle_it 5.387 r_scbond_it 3.137 r_mcangle_it 2.344 r_angle_refined_deg 1.747 r_mcbond_it 1.224 r_chiral_restr 0.117
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.91 r_dihedral_angle_3_deg 19.485 r_dihedral_angle_4_deg 18.75 r_dihedral_angle_1_deg 7.279 r_scangle_it 5.387 r_scbond_it 3.137 r_mcangle_it 2.344 r_angle_refined_deg 1.747 r_mcbond_it 1.224 r_chiral_restr 0.117 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2600 Nucleic Acid Atoms Solvent Atoms 38 Heterogen Atoms 82
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling REFMAC phasing