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Crystal structure of the complex between gp41 fragments N36 and C34 mutant N126K/E137Q
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AIK PDB ENTRY 1AIK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 277 80mM ammonium chloride, 16% 2-methylpentan-2,4-diol, 25% isopropanol, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.46 50.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.632 α = 90 b = 50.479 β = 90.88 c = 56.154 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV++ 2005-08-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 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 1.7 35 99.1 0.072 3.61 27434 1 20
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.74 99.95
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 1AIK 1.7 23.88 25818 1362 99.1 0.19021 0.18864 0.1871 0.21933 0.2175 RANDOM 12.491
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] 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.498 r_dihedral_angle_4_deg 14.647 r_dihedral_angle_3_deg 12.073 r_scangle_it 3.826 r_dihedral_angle_1_deg 3.202 r_scbond_it 2.359 r_mcangle_it 1.194 r_angle_refined_deg 0.989 r_mcbond_it 0.786 r_nbtor_refined 0.291
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.498 r_dihedral_angle_4_deg 14.647 r_dihedral_angle_3_deg 12.073 r_scangle_it 3.826 r_dihedral_angle_1_deg 3.202 r_scbond_it 2.359 r_mcangle_it 1.194 r_angle_refined_deg 0.989 r_mcbond_it 0.786 r_nbtor_refined 0.291 r_symmetry_vdw_refined 0.222 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.122 r_symmetry_hbond_refined 0.116 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1803 Nucleic Acid Atoms Solvent Atoms 146 Heterogen Atoms 10
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement CrystalClear data reduction CrystalClear data scaling