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Crystal structure of the inhibitor Nelfinavir (NFV) in complex with a multi-drug resistant HIV-1 protease variant (L10I/G48V/I54V/V64I/V82A) (Refer: FLAP+ in citation)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 298 pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.11 41.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.073 α = 90 b = 58.484 β = 90 c = 61.096 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 133 IMAGE PLATE RIGAKU RAXIS IV 2004-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 20 0.044 12.6 12125 12125
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2 20 12104 591 94.13 0.2 0.197 0.2061 0.25 0.2658 RANDOM 29.943
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] -2.92 0.37 2.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.179 r_dihedral_angle_3_deg 14.18 r_dihedral_angle_4_deg 13.356 r_dihedral_angle_1_deg 6.705 r_scangle_it 2.242 r_scbond_it 1.583 r_angle_other_deg 1.271 r_angle_refined_deg 1.166 r_mcangle_it 0.978 r_mcbond_it 0.931
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.179 r_dihedral_angle_3_deg 14.18 r_dihedral_angle_4_deg 13.356 r_dihedral_angle_1_deg 6.705 r_scangle_it 2.242 r_scbond_it 1.583 r_angle_other_deg 1.271 r_angle_refined_deg 1.166 r_mcangle_it 0.978 r_mcbond_it 0.931 r_symmetry_vdw_other 0.331 r_nbd_refined 0.292 r_symmetry_vdw_refined 0.276 r_xyhbond_nbd_refined 0.26 r_nbd_other 0.207 r_symmetry_hbond_refined 0.199 r_nbtor_refined 0.163 r_mcbond_other 0.116 r_nbtor_other 0.085 r_chiral_restr 0.068 r_gen_planes_other 0.034 r_bond_refined_d 0.007 r_bond_other_d 0.005 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1483 Nucleic Acid Atoms Solvent Atoms 125 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction SCALEPACK data scaling AMoRE phasing