☰ Navigation Tabs
CRYSTAL STRUCTURE OF HLA-B*2705 COMPLEXED WITH THE VASOACTIVE INTESTINAL PEPTIDE TYPE 1 RECEPTOR (VIPR) PEPTIDE (RESIDUES 400-408)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OF2 PDB ENTRY 1OF2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 291 TRIS PH 8.0, 16% PEG 8000, HANGING DROP, TEMPERATURE 291K
Crystal Properties Matthews coefficient Solvent content 2.9 56.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.259 α = 90 b = 81.777 β = 107.61 c = 65.617 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 IMAGE PLATE MARRESEARCH 2002-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 BESSY 14.2
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 1.47 50 97.6 0.078 13.3 4.2 84476
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 1.47 1.53 95.2 0.314 2.2 3.3
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 1OF2 1.47 62.02 80199 4249 96.6 0.131 0.128 0.1388 0.178 0.1827 RANDOM 17.28
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] 0.17 0.23 -0.28 0.25
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 9.669 r_scbond_it 7.686 r_dihedral_angle_1_deg 7.306 r_mcangle_it 6.813 r_mcbond_it 5.588 r_angle_refined_deg 1.399 r_angle_other_deg 0.874 r_symmetry_vdw_other 0.307 r_nbd_other 0.259 r_nbd_refined 0.223
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 9.669 r_scbond_it 7.686 r_dihedral_angle_1_deg 7.306 r_mcangle_it 6.813 r_mcbond_it 5.588 r_angle_refined_deg 1.399 r_angle_other_deg 0.874 r_symmetry_vdw_other 0.307 r_nbd_other 0.259 r_nbd_refined 0.223 r_symmetry_vdw_refined 0.212 r_xyhbond_nbd_refined 0.199 r_symmetry_hbond_refined 0.197 r_chiral_restr 0.09 r_nbtor_other 0.08 r_gen_planes_other 0.014 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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 3189 Nucleic Acid Atoms Solvent Atoms 721 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing