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Insights into anti-parallel microtubule crosslinking by PRC1, a conserved non-motor microtubule binding protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NRY PDB ENTRY 3NRY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 9.5 277 1:1 v/v of protein ( 50 mg/ml in 80 mM PIPES, pH6.8, 1 mM MgCl2, 1 mM EDTA and 150 mM KCl) and reservoir buffer (100 mM CHES, pH 9.5, 30% PEG3000), VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.08 40.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.078 α = 90 b = 49.078 β = 90 c = 94.784 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 173 CCD ADSC QUANTUM 315 2009-04-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.75 25 94 0.053 0.053 31.4 4.3 24182
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.75 1.81 94.8 0.361 0.361 2.62 4.3
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 3NRY 1.75 25 24390 22853 1285 93.7 0.202 0.198 0.2091 0.269 0.2862 RANDOM 28.26
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] 6.01 6.01 -12.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.716 r_dihedral_angle_4_deg 18.374 r_dihedral_angle_3_deg 15.632 r_dihedral_angle_1_deg 4.71 r_scangle_it 2.169 r_scbond_it 1.35 r_angle_refined_deg 1.03 r_angle_other_deg 0.801 r_mcangle_it 0.724 r_mcbond_it 0.391
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.716 r_dihedral_angle_4_deg 18.374 r_dihedral_angle_3_deg 15.632 r_dihedral_angle_1_deg 4.71 r_scangle_it 2.169 r_scbond_it 1.35 r_angle_refined_deg 1.03 r_angle_other_deg 0.801 r_mcangle_it 0.724 r_mcbond_it 0.391 r_mcbond_other 0.103 r_chiral_restr 0.065 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2048 Nucleic Acid Atoms Solvent Atoms 216 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling