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Crystal structure of B*27:06 bound to the pVIPR peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2A83
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 20%(w/v) PEG 8000, 100 mM Tris-HCl pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.9 57.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.768 α = 90 b = 81.684 β = 107.53 c = 64.433 γ = 90
Symmetry Space Group P 1 21 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 CCD MARRESEARCH 2005-05-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 1.005 MPG/DESY, HAMBURG BW6
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 1.83 30 99.1 0.036 34.7 3.6 43847 20.4
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 1.83 1.9 92.2 6 3.4
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 2a83 1.83 20 41622 2205 99.57 0.17214 0.17097 0.174 0.19308 0.1948 RANDOM 19.591
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] 0.29 0.48 -0.77 0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.372 r_dihedral_angle_4_deg 16.949 r_dihedral_angle_3_deg 12.992 r_dihedral_angle_1_deg 5.985 r_scangle_it 2.727 r_scbond_it 1.659 r_angle_refined_deg 1.267 r_mcangle_it 1.105 r_angle_other_deg 0.798 r_mcbond_it 0.608
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.372 r_dihedral_angle_4_deg 16.949 r_dihedral_angle_3_deg 12.992 r_dihedral_angle_1_deg 5.985 r_scangle_it 2.727 r_scbond_it 1.659 r_angle_refined_deg 1.267 r_mcangle_it 1.105 r_angle_other_deg 0.798 r_mcbond_it 0.608 r_mcbond_other 0.16 r_chiral_restr 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 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 3190 Nucleic Acid Atoms Solvent Atoms 392 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing