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Crystal Structure of the multi-drug resistant mutant subtype B HIV protease complexed with TL-3 inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other The same structure previously solved in space group P6(1)22
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 291 6% (v/v) MPD, 0.32M ammonium sulfate, 0.1M sodium cacodylate, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.03 39.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.931 α = 90 b = 60.931 β = 90 c = 82.463 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 100 CCD MAR CCD 165 mm 2004-01-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE D03B-MX1 LNLS D03B-MX1
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 1.75 52.78 99.6 0.037 17.8 4.8 17492 17492 26.415
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 1.75 1.84 100 0.348 3.4 4.8 2569
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 (All) 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 The same structure previously solved in space group P6(1)22 1.75 19.2 17467 884 99.63 0.185 0.185 0.183 0.1821 0.232 0.2316 RANDOM 30.161
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] -0.02 -0.01 -0.02 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.348 r_dihedral_angle_4_deg 19.147 r_dihedral_angle_3_deg 13.121 r_sphericity_bonded 11.754 r_dihedral_angle_1_deg 6.353 r_scangle_it 3.709 r_scbond_it 2.701 r_mcangle_it 2.639 r_rigid_bond_restr 1.829 r_angle_refined_deg 1.777
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.348 r_dihedral_angle_4_deg 19.147 r_dihedral_angle_3_deg 13.121 r_sphericity_bonded 11.754 r_dihedral_angle_1_deg 6.353 r_scangle_it 3.709 r_scbond_it 2.701 r_mcangle_it 2.639 r_rigid_bond_restr 1.829 r_angle_refined_deg 1.777 r_mcbond_it 1.647 r_nbtor_refined 0.33 r_symmetry_hbond_refined 0.289 r_nbd_refined 0.255 r_xyhbond_nbd_refined 0.191 r_symmetry_vdw_refined 0.189 r_chiral_restr 0.095 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1518 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction CCP4 data scaling PHASER phasing