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Structure of Fab fragment of malaria transmission blocking antibody 2A8 against P. vivax P25 protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Z3G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 0.1 M MES, 25% PEGMME550, 10mM ZnSO4, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.79 74.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 134.075 α = 90 b = 177.819 β = 90 c = 74.624 γ = 90
Symmetry Space Group C 2 2 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 MAR CCD 165 mm 2004-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 1.0 APS 14-BM-C
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 4 100 99.7 0.15 13.2 7.3 7804 7444
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 4.009 99.7 0.151 13.2 13.2 7444
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1Z3G 4.01 50 7804 7444 524 99.74 0.26646 0.26646 0.26441 0.2618 0.31001 0.3061 RANDOM 100.907
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] -11.34 -0.69 12.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.341 r_dihedral_angle_4_deg 29.339 r_dihedral_angle_3_deg 24.594 r_dihedral_angle_1_deg 8.81 r_angle_refined_deg 1.663 r_scangle_it 1.587 r_scbond_it 0.851 r_mcangle_it 0.827 r_mcbond_it 0.44 r_chiral_restr 0.113
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.341 r_dihedral_angle_4_deg 29.339 r_dihedral_angle_3_deg 24.594 r_dihedral_angle_1_deg 8.81 r_angle_refined_deg 1.663 r_scangle_it 1.587 r_scbond_it 0.851 r_mcangle_it 0.827 r_mcbond_it 0.44 r_chiral_restr 0.113 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3231 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose HKL-3000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling