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Crystal structure of an immunogen specific anti-mannopyranoside monoclonal antibody Fab fragment
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6FAB PDB ENTRY 6FAB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.4 50MM TRISCL, PH 7.4 WITH 20% PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.2 43.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.021 α = 90 b = 79.737 β = 90.75 c = 132.276 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 120 IMAGE PLATE MARRESEARCH MIRRORS 2003-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300
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 2.8 50 95.9 0.1 7.3 3.25 19865 38.9
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 2.8 2.9 94.4 0.38 1.2 3.23
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 6FAB 2.8 17.46 19482 1922 94.2 0.2424 0.2424 0.2423 0.2676 0.2689 RANDOM 45.68
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] -10.23 0.925 -7.157 17.387
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 28 c_scangle_it 4.78 c_mcangle_it 3.75 c_scbond_it 3.35 c_mcbond_it 2.25 c_angle_deg 1.75834 c_improper_angle_d 1.18 c_bond_d 0.009746 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 28 c_scangle_it 4.78 c_mcangle_it 3.75 c_scbond_it 3.35 c_mcbond_it 2.25 c_angle_deg 1.75834 c_improper_angle_d 1.18 c_bond_d 0.009746 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6598 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms
Software Software Software Name Purpose CNS refinement AUTOMAR data reduction AUTOMAR data scaling AMoRE phasing