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Crystal structure of unliganded griffithsin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GUX pdb entry 2GUX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 293 0.2M ammonium sulfate, 30% PEG 4000, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.08 40.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.98 α = 90 b = 64.65 β = 90 c = 96.32 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 2005-12-15 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) 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 1.3 50 99.8 0.062 14 4.6 53034 53034 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.3 1.35 99.1 0.382 2.5 2.7 5175
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 2GUX 1.3 30 53034 52949 2687 99.55 0.159 0.159 0.159 0.1851 0.189 0.1989 RANDOM 19.484
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] 0.7 -0.37 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.54 r_dihedral_angle_4_deg 15.936 r_dihedral_angle_3_deg 9.939 r_dihedral_angle_1_deg 6.534 r_scangle_it 4.929 r_scbond_it 3.713 r_mcangle_it 2.533 r_mcbond_it 1.745 r_angle_refined_deg 1.458 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.54 r_dihedral_angle_4_deg 15.936 r_dihedral_angle_3_deg 9.939 r_dihedral_angle_1_deg 6.534 r_scangle_it 4.929 r_scbond_it 3.713 r_mcangle_it 2.533 r_mcbond_it 1.745 r_angle_refined_deg 1.458 r_nbtor_refined 0.312 r_nbd_refined 0.207 r_symmetry_vdw_refined 0.196 r_xyhbond_nbd_refined 0.14 r_symmetry_hbond_refined 0.127 r_chiral_restr 0.103 r_bond_refined_d 0.021 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 1840 Nucleic Acid Atoms Solvent Atoms 283 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction DENZO data reduction HKL-2000 data scaling SCALEPACK data scaling PHASER phasing