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crossreactive binding of a circularized peptide to an anti-TGFalpha antibody Fab-fragment
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FBI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 PROTEIN IN TRIS-HCL, 8.5 11-14 MG/ML PRECIPITANT: 12% PEG MME 2000, 5 MM NICL2, 0.1 M TRIS-HCL, PH 8.5
Crystal Properties Matthews coefficient Solvent content 3 51.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.22 α = 90 b = 94.35 β = 90 c = 121.79 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 XRAY RESEARCH 1999-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 MPG/DESY, HAMBURG BW6
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 1.95 74.5 94.6 0.081 19.5 9.9 39968 30
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 1.95 1.98 54.2 0.288 5.7 6.3
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1FBI 1.95 20 41695 2099 94.6 0.204 0.1918 0.269 0.2492 RANDOM 35.9
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 p_transverse_tor 21.6 p_staggered_tor 18.4 p_planar_tor 8.2 p_scangle_it 4.378 p_mcangle_it 3.317 p_scbond_it 3.148 p_mcbond_it 2.508 p_chiral_restr 0.288 p_multtor_nbd 0.259 p_singtor_nbd 0.188
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 21.6 p_staggered_tor 18.4 p_planar_tor 8.2 p_scangle_it 4.378 p_mcangle_it 3.317 p_scbond_it 3.148 p_mcbond_it 2.508 p_chiral_restr 0.288 p_multtor_nbd 0.259 p_singtor_nbd 0.188 p_planar_d 0.066 p_angle_d 0.045 p_plane_restr 0.0284 p_bond_d 0.024 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_xyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3331 Nucleic Acid Atoms Solvent Atoms 409 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing