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crystal structure of tamarind chitinase like lectin (TCLL) complexed with N-acetyl glucosamine (GlcNAc)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HVM PDB ENTRY 2HVM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 20 MM CALCIUM CHLORIDE, 100 MM SODIUM ACETATE (PH 5), 30% MPD
Crystal Properties Matthews coefficient Solvent content 3 59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.061 α = 90 b = 100.061 β = 90 c = 81.843 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH 2010-03-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR-H
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 50 97.8 0.03 49 7.7 54128 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 1.63 56.3 0.38 3 5.3
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 2HVM 1.61 23.93 51066 2737 99.17 0.14461 0.14264 0.139 0.18248 0.1776 RANDOM 23.058
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] -0.32 -0.32 0.64
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 35.405 r_dihedral_angle_2_deg 34.958 r_dihedral_angle_4_deg 16.581 r_dihedral_angle_3_deg 11.931 r_sphericity_bonded 10.652 r_dihedral_angle_1_deg 5.837 r_rigid_bond_restr 1.698 r_angle_refined_deg 1.315 r_chiral_restr 0.096 r_bond_refined_d 0.007
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 35.405 r_dihedral_angle_2_deg 34.958 r_dihedral_angle_4_deg 16.581 r_dihedral_angle_3_deg 11.931 r_sphericity_bonded 10.652 r_dihedral_angle_1_deg 5.837 r_rigid_bond_restr 1.698 r_angle_refined_deg 1.315 r_chiral_restr 0.096 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2105 Nucleic Acid Atoms Solvent Atoms 381 Heterogen Atoms 77
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction DENZO data scaling MOLREP phasing