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Crystal structure of Fab C2 in complex with a Cyclic variant of Hepatitis C Virus E2 epitope I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Y5T 2Y5T AND 2Y6S experimental model PDB 2Y6S 2Y5T AND 2Y6S
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.2 M ammonium sulphate and 25% (w/v) PEG 3,350
Crystal Properties Matthews coefficient Solvent content 2.45 49.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.972 α = 90.35 b = 56.191 β = 90.18 c = 77.153 γ = 94.98
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 RIGAKU SATURN 944 2012-07-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 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 1.98 25 93 0.077 15.9 2.9 59746
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 1.98 2.05 81.7
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 2Y5T AND 2Y6S 1.98 15 56256 3000 92.35 0.2343 0.2375 0.26565 0.2703 RANDOM 28.907
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.732 r_dihedral_angle_4_deg 22.662 r_dihedral_angle_3_deg 17.376 r_dihedral_angle_1_deg 7.789 r_scangle_it 3.253 r_scbond_it 2.041 r_mcangle_it 1.587 r_angle_refined_deg 1.568 r_angle_other_deg 0.946 r_mcbond_it 0.879
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.732 r_dihedral_angle_4_deg 22.662 r_dihedral_angle_3_deg 17.376 r_dihedral_angle_1_deg 7.789 r_scangle_it 3.253 r_scbond_it 2.041 r_mcangle_it 1.587 r_angle_refined_deg 1.568 r_angle_other_deg 0.946 r_mcbond_it 0.879 r_mcbond_other 0.164 r_chiral_restr 0.085 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_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 6732 Nucleic Acid Atoms Solvent Atoms 476 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing