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Crystal structure of HIV-1 Reverse Transcriptase (RT) in complex with a Difluoromethylbenzoxazole (DFMB) Pyrimidine Thioether derivative, a non-nucleoside RT inhibitor (NNRTI)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other REVERSE TRANSCRIPTASE
Crystallization Crystal Properties Matthews coefficient Solvent content 3.08 60.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.046 α = 90 b = 155.576 β = 90 c = 152.764 γ = 90
Symmetry Space Group C 2 2 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 MARRESEARCH SX-165 MIRROR 2008-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 MAX II I911-2
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 20.75 99.7 0.09 20.9 9.6 36314
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 0.52 4.5 9.8
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT REVERSE TRANSCRIPTASE 2.9 30 29412 1559 99.8 0.22 0.3094 0.29 0.3534 RANDOM 56
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] -3.4 -2.85 6.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.532 r_dihedral_angle_3_deg 21.168 r_dihedral_angle_4_deg 17.424 r_dihedral_angle_1_deg 7.482 r_scangle_it 3.261 r_scbond_it 1.815 r_mcangle_it 1.598 r_mcbond_it 0.845 r_chiral_restr 0.116 r_bond_refined_d 0.015
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.532 r_dihedral_angle_3_deg 21.168 r_dihedral_angle_4_deg 17.424 r_dihedral_angle_1_deg 7.482 r_scangle_it 3.261 r_scbond_it 1.815 r_mcangle_it 1.598 r_mcbond_it 0.845 r_chiral_restr 0.116 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_gen_planes_other 0.008 r_bond_other_d r_angle_refined_deg r_angle_other_deg 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_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 7876 Nucleic Acid Atoms Solvent Atoms 276 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing