☰ Navigation Tabs
Crystal structure of the anti-hinge rabbit antibody 2095-2 in complex with IDES hinge peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4MA3 PDB ENTRY 4MA3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 0.1 M Tris, pH 8.5, 18.33% PEG3350, 0.2 M lithium sulfate, 5% isopropanol, cryoprotection: mother liquor + 20% glycerol, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.46 50.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.41 α = 90 b = 89.37 β = 90 c = 83.39 γ = 90
Symmetry Space Group P 21 21 2
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 VARIMAX HF 2009-12-16 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 1.85 25 89.2 0.059 17.5 8.9 37290 -3 29
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 1.85 1.92 51.6 0.242 6.1 6.9
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 4MA3 1.85 25 35290 1875 88.96 0.1942 0.1919 0.2059 0.2367 0.2508 RANDOM 33.146
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] 0.09 0.66 -0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.412 r_dihedral_angle_4_deg 13.56 r_dihedral_angle_3_deg 12.914 r_dihedral_angle_1_deg 6.283 r_scangle_it 2.689 r_scbond_it 1.701 r_angle_refined_deg 1.368 r_mcangle_it 1.162 r_angle_other_deg 0.842 r_mcbond_it 0.666
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.412 r_dihedral_angle_4_deg 13.56 r_dihedral_angle_3_deg 12.914 r_dihedral_angle_1_deg 6.283 r_scangle_it 2.689 r_scbond_it 1.701 r_angle_refined_deg 1.368 r_mcangle_it 1.162 r_angle_other_deg 0.842 r_mcbond_it 0.666 r_mcbond_other 0.183 r_chiral_restr 0.082 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3291 Nucleic Acid Atoms Solvent Atoms 492 Heterogen Atoms 30
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement d*TREK data reduction d*TREK data scaling