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Crystal structure of truncated human CRMP-5 soaked with Zn
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4B91 PDB ENTRY 4B91
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 23% (V/V) PEG 400 MMT PH 5.0
Crystal Properties Matthews coefficient Solvent content 2.28 46.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.5 α = 90 b = 89.5 β = 90 c = 246.46 γ = 90
Symmetry Space Group P 41 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 315r M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 2.9 39.3 99.9 0.14 10.1 7 23108 3 70.549
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 2.9 3.06 100 0.65 2.6 7.2
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 4B91 2.9 38.92 21826 1180 99.63 0.19377 0.19077 0.197 0.25009 0.2525 RANDOM 47.298
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] -2.19 -2.19 4.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.011 r_dihedral_angle_3_deg 15.949 r_dihedral_angle_4_deg 15.57 r_dihedral_angle_1_deg 6.414 r_angle_refined_deg 1.459 r_angle_other_deg 1.014 r_chiral_restr 0.072 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.011 r_dihedral_angle_3_deg 15.949 r_dihedral_angle_4_deg 15.57 r_dihedral_angle_1_deg 6.414 r_angle_refined_deg 1.459 r_angle_other_deg 1.014 r_chiral_restr 0.072 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.005 r_gen_planes_other 0.005 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_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it 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 7300 Nucleic Acid Atoms Solvent Atoms 3 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing