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Discovery of an allosteric mechanism for the regulation of HCV NS3 protein function
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CU1 PDB ENTRY 1CU1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.2 M 2-(N-MORPHOLINO)ETHANESULFONIC ACID (MES)-NAOH PH 6.6, 14-20% W/V POLYETHYLENE GLYCOL (PEG) 6000, 10% W/V 2-METHYL-2,4-PENTANDIOL (MPD) IN HANGING DROP CRYSTALLISATION AT 20C.
Crystal Properties Matthews coefficient Solvent content 2.55 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.315 α = 90 b = 111.288 β = 90 c = 139.626 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 100 CCD ADSC QUANTUM 315r 2007-12-12 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 2.89 87 95.9 0.081 8.8 2.6 32130 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 2.89 2.97 92.9 0.36 3 2.5
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 1CU1 2.89 87.03 29284 1554 95 0.17445 0.16999 0.1787 0.25909 0.2592 RANDOM 33.116
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] 1.32 1.44 -2.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.378 r_dihedral_angle_3_deg 18.209 r_dihedral_angle_4_deg 15.494 r_dihedral_angle_1_deg 6.905 r_angle_refined_deg 1.357 r_angle_other_deg 0.912 r_symmetry_vdw_other 0.218 r_nbd_refined 0.217 r_nbd_other 0.194 r_nbtor_refined 0.188
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.378 r_dihedral_angle_3_deg 18.209 r_dihedral_angle_4_deg 15.494 r_dihedral_angle_1_deg 6.905 r_angle_refined_deg 1.357 r_angle_other_deg 0.912 r_symmetry_vdw_other 0.218 r_nbd_refined 0.217 r_nbd_other 0.194 r_nbtor_refined 0.188 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.147 r_chiral_restr 0.102 r_scangle_it 0.101 r_symmetry_hbond_refined 0.092 r_nbtor_other 0.089 r_mcangle_it 0.083 r_scbond_it 0.072 r_mcbond_it 0.05 r_xyhbond_nbd_other 0.043 r_mcbond_other 0.013 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 9602 Nucleic Acid Atoms Solvent Atoms 158 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling CSEARCH phasing