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Structure of a chondroitin sulphate binding DBL3X from a var2csa encoded PfEMP1 protein in complex with sulphate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 20% PEG 4K, 20mM HEPES pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2 38.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.258 α = 90 b = 86.555 β = 90 c = 92.33 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 CCD ADSC QUANTUM 1 2007-08-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.979 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.8 63 99.8 0.101 0.101 14.5 7 31419 2 2 25.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 100 0.791 0.791 2.2 7.1 4507
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.8 46.18 29784 1575 99.78 0.23382 0.23093 0.28647 0.3059 RANDOM 20.148
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] 0.04 -0.2 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.609 r_dihedral_angle_3_deg 14.258 r_dihedral_angle_4_deg 10.69 r_dihedral_angle_1_deg 7.811 r_scangle_it 2.162 r_scbond_it 1.419 r_angle_refined_deg 1.087 r_mcangle_it 1.055 r_mcbond_it 0.663 r_symmetry_hbond_refined 0.317
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.609 r_dihedral_angle_3_deg 14.258 r_dihedral_angle_4_deg 10.69 r_dihedral_angle_1_deg 7.811 r_scangle_it 2.162 r_scbond_it 1.419 r_angle_refined_deg 1.087 r_mcangle_it 1.055 r_mcbond_it 0.663 r_symmetry_hbond_refined 0.317 r_nbtor_refined 0.3 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.178 r_xyhbond_nbd_refined 0.138 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2732 Nucleic Acid Atoms Solvent Atoms 232 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement ADSC data collection MOSFLM data reduction SCALA data scaling SHARP phasing