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Crystal Structure of the broadly neutralizing anti-HIV-1 antibody 2F5 in complex with a gp41 7mer epitope
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RZG PDB ENTRY 1RZG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 293 20% PEG 4000, 20% Isopropanol, 0.1M Sodium Citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 5.60
Crystal Properties Matthews coefficient Solvent content 3.373 63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.86 α = 90 b = 64.02 β = 90 c = 179.41 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 MARRESEARCH 2003-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 97.1 0.089 7.5 4 43466 -3 14
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.07 92.1 0.53 1.47 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1RZG 2 20 45963 40962 4108 90.7 0.198 0.198 0.1985 0.225 0.2258 RANDOM 31.7
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] 1.36 2.79 -4.14
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 27 c_scangle_it 3.26 c_mcangle_it 2.25 c_scbond_it 2.21 c_mcbond_it 1.41 c_angle_deg 1.3 c_improper_angle_d 0.86 c_bond_d 0.006 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 27 c_scangle_it 3.26 c_mcangle_it 2.25 c_scbond_it 2.21 c_mcbond_it 1.41 c_angle_deg 1.3 c_improper_angle_d 0.86 c_bond_d 0.006 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3481 Nucleic Acid Atoms Solvent Atoms 419 Heterogen Atoms 12
Software Software Software Name Purpose CNS refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing