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Crystal structure of a complex of griffithsin with maltose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GUC PDB ENTRY 2GUC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 1.8M magnesium sulfate, 0.1M MES, 1:10 ratio of griffithsin monomers to maltose, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.16 42.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.82 α = 90 b = 53.26 β = 90 c = 118.47 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 MARMOSAIC 300 mm CCD 2006-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
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 1.51 50 99.9 35264 35264 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.51 1.56 99.3
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 PDB ENTRY 2GUC 1.51 30 35264 33427 1764 99.62 0.15395 0.15395 0.15229 0.1642 0.1854 0.1978 RANDOM 15.097
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] -0.46 -0.56 1.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.623 r_dihedral_angle_4_deg 18.967 r_dihedral_angle_3_deg 13.525 r_dihedral_angle_1_deg 7.337 r_scangle_it 4.372 r_scbond_it 3.357 r_angle_other_deg 2.841 r_mcangle_it 1.998 r_angle_refined_deg 1.959 r_mcbond_it 1.622
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.623 r_dihedral_angle_4_deg 18.967 r_dihedral_angle_3_deg 13.525 r_dihedral_angle_1_deg 7.337 r_scangle_it 4.372 r_scbond_it 3.357 r_angle_other_deg 2.841 r_mcangle_it 1.998 r_angle_refined_deg 1.959 r_mcbond_it 1.622 r_chiral_restr 0.644 r_mcbond_other 0.404 r_symmetry_vdw_refined 0.338 r_symmetry_vdw_other 0.309 r_symmetry_hbond_refined 0.284 r_nbd_refined 0.233 r_nbd_other 0.196 r_xyhbond_nbd_refined 0.184 r_nbtor_refined 0.183 r_nbtor_other 0.099 r_metal_ion_refined 0.026 r_bond_refined_d 0.021 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1798 Nucleic Acid Atoms Solvent Atoms 275 Heterogen Atoms 167
Software Software Software Name Purpose REFMAC refinement MAR345 data collection HKL-2000 data reduction DENZO data reduction HKL-2000 data scaling SCALEPACK data scaling PHASER phasing