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CS-35 Fab complex with a linear, terminal oligoarabinofuranosyl tetrasaccharide from lipoarabinomannan
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 2.58 52.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 146.702 α = 90 b = 95.787 β = 102.52 c = 35.79 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 2008-06-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.115872 ALS 8.3.1
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 1.8 40 87.6 0.1 0.1 10.2 2.7 36601 36601 -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 1.8 1.86 87.6 0.318 0.318 2.3 2 7919
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1E4X, 1F58 1.8 39.81 36601 36601 1996 100 0.19925 0.19925 0.1963 0.1995 0.25508 RANDOM 25.647
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] 1.93 0.3 -1.81 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.403 r_dihedral_angle_4_deg 17.317 r_dihedral_angle_3_deg 11.546 r_dihedral_angle_1_deg 5.76 r_scangle_it 4.486 r_scbond_it 3.302 r_mcangle_it 2.391 r_mcbond_it 1.651 r_angle_refined_deg 1.114 r_nbtor_refined 0.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.403 r_dihedral_angle_4_deg 17.317 r_dihedral_angle_3_deg 11.546 r_dihedral_angle_1_deg 5.76 r_scangle_it 4.486 r_scbond_it 3.302 r_mcangle_it 2.391 r_mcbond_it 1.651 r_angle_refined_deg 1.114 r_nbtor_refined 0.297 r_symmetry_vdw_refined 0.189 r_nbd_refined 0.175 r_symmetry_hbond_refined 0.115 r_xyhbond_nbd_refined 0.112 r_chiral_restr 0.067 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 550 Heterogen Atoms 38
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling