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Five site mutated Cyanovirin-N with Mannose dimer bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PYS PDB ENTRY 2PYS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 298 30% PEG 8000, 100 MM MGSO4, 2 MM MAN2, VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 6.00
Crystal Properties Matthews coefficient Solvent content 2.18 43.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.205 α = 90 b = 38.452 β = 99.94 c = 55.953 γ = 90
Symmetry Space Group P 1 21 1
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 315 2006-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 ALS 8.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.35 48.45 94.4 0.092 6.4 2.5 43019 15.3
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) 1.35 1.4 91.2 0.511 1.97 2.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 THROUGHOUT PDB ENTRY 2PYS 1.35 8 40605 2171 94.4 0.185 0.184 0.1828 0.199 0.1971 RANDOM 17.5
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] -0.63 0.24 0.36 0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.818 r_dihedral_angle_4_deg 16.669 r_dihedral_angle_3_deg 11.311 r_dihedral_angle_1_deg 6.187 r_sphericity_free 3.163 r_scangle_it 2.995 r_sphericity_bonded 2.637 r_scbond_it 2.457 r_rigid_bond_restr 2.08 r_mcangle_it 1.337
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.818 r_dihedral_angle_4_deg 16.669 r_dihedral_angle_3_deg 11.311 r_dihedral_angle_1_deg 6.187 r_sphericity_free 3.163 r_scangle_it 2.995 r_sphericity_bonded 2.637 r_scbond_it 2.457 r_rigid_bond_restr 2.08 r_mcangle_it 1.337 r_angle_refined_deg 1.202 r_mcbond_it 0.784 r_nbtor_refined 0.301 r_nbd_refined 0.201 r_symmetry_vdw_refined 0.185 r_symmetry_hbond_refined 0.163 r_xyhbond_nbd_refined 0.159 r_chiral_restr 0.078 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1539 Nucleic Acid Atoms Solvent Atoms 259 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing