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Crystal Structure of 3D7 strain Plasmodium falciparum AMA1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Z40 PDB entry 1Z40
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 12-15 % (v/v) polyethylene glycol 3350, 0.02 M MES and 10 mM manganese chloride. Crystals were dehydrated overnight in reservoir solution with increased (35%) (v/v) polyethylene glycol 3350 before cryo-stabilisation in 38% (v/v) polyethylene glycol 3350, 0.088 M MES (pH 6.0) and 44 mM manganese chloride for 6-8 h prior to data collection, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.38 48.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.355 α = 90 b = 54.355 β = 90 c = 214.275 γ = 120
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 ADSC QUANTUM 315r 2013-10-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9537 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 47.07 100 65700 8
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 PDB entry 1Z40 1.8 47.07 1.96 65545 3327 99.88 0.1737 0.172 0.1753 0.2047 0.2044 5%
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 f_dihedral_angle_d 12.548 f_angle_d 1.024 f_chiral_restr 0.044 f_bond_d 0.007 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4956 Nucleic Acid Atoms Solvent Atoms 433 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection PHASES phasing PHENIX refinement MOSFLM data reduction SCALA data scaling