☰ Navigation Tabs
Structure of BambL lectin from Burkholderia ambifaria
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BT9 PDB ENTRY 2BT9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 pH 7.5
Crystal Properties Matthews coefficient Solvent content 1.78 31.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.11 α = 90 b = 47.25 β = 90 c = 98.33 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 ADSC CCD 2010-07-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A ESRF BM30A
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 1.6 33.24 93.7 0.03 26.6 3.7 26647 3 10.2
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 1.6 1.69 70.5 0.06 13.4 2.6
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 2BT9 1.6 49.16 25224 1334 93.23 0.14569 0.14344 0.152 0.18842 0.193 RANDOM 7.177
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] -0.45 -0.17 0.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.788 r_dihedral_angle_4_deg 14.602 r_dihedral_angle_3_deg 13.601 r_dihedral_angle_1_deg 6.868 r_scangle_it 3.065 r_scbond_it 2.178 r_mcangle_it 1.54 r_angle_refined_deg 1.537 r_mcbond_it 0.92 r_angle_other_deg 0.843
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.788 r_dihedral_angle_4_deg 14.602 r_dihedral_angle_3_deg 13.601 r_dihedral_angle_1_deg 6.868 r_scangle_it 3.065 r_scbond_it 2.178 r_mcangle_it 1.54 r_angle_refined_deg 1.537 r_mcbond_it 0.92 r_angle_other_deg 0.843 r_mcbond_other 0.276 r_nbd_other 0.23 r_nbtor_refined 0.193 r_symmetry_vdw_other 0.169 r_symmetry_vdw_refined 0.16 r_nbd_refined 0.155 r_symmetry_hbond_refined 0.146 r_xyhbond_nbd_refined 0.138 r_nbtor_other 0.119 r_chiral_restr 0.096 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1984 Nucleic Acid Atoms Solvent Atoms 399 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing