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CS-35 Fab Complex with Oligoarabinofuranosyl Tetrasaccharide (branch part of Hexasaccharide)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1E4X 1E4X, 1F58 experimental model PDB 1F58 1E4X, 1F58
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.1 295 sodium citrate, magnesium chloride, TMAO, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.54 51.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.785 α = 90 b = 95.111 β = 102.51 c = 35.666 γ = 90
Symmetry Space Group C 1 2 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 2008-07-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97950 SSRL BL11-1
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 2 40 96.6 0.099 0.099 10.6 2.8 29420 29420 -3 -3
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 2 2.07 82.6 0.221 0.221 3.6 2 5366
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1E4X, 1F58 2 39.53 29420 29420 1595 100 0.17701 0.17701 0.17409 0.22963 RANDOM 26.996
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] 2.21 0.07 -0.74 -1.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.901 r_dihedral_angle_3_deg 11.858 r_dihedral_angle_4_deg 10.431 r_dihedral_angle_1_deg 6.008 r_scangle_it 4.851 r_scbond_it 3.521 r_mcangle_it 2.501 r_mcbond_it 1.7 r_angle_refined_deg 1.126 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.901 r_dihedral_angle_3_deg 11.858 r_dihedral_angle_4_deg 10.431 r_dihedral_angle_1_deg 6.008 r_scangle_it 4.851 r_scbond_it 3.521 r_mcangle_it 2.501 r_mcbond_it 1.7 r_angle_refined_deg 1.126 r_nbtor_refined 0.298 r_nbd_refined 0.183 r_symmetry_vdw_refined 0.167 r_symmetry_hbond_refined 0.133 r_xyhbond_nbd_refined 0.12 r_chiral_restr 0.068 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 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 3340 Nucleic Acid Atoms Solvent Atoms 449 Heterogen Atoms 38
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling