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Crystal structure of Brassica juncea chitinase catalytic module (Bjchi3)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BAA Homology model of Brassica juncea chitinase built on PDB ENTRY 2BAA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 295 10% mono methyl PEG 5000, 0.2M unbuffered sodium acetate, 0.1M sodium acetate, pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.1 40.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.249 α = 79.34 b = 61.821 β = 89.52 c = 75.359 γ = 88.9
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 4 2003-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
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 1.53 50 95.8 0.145 20.7 2 130887
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) 1.53 1.56 93.1 0.248 1.6 6382
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 Homology model of Brassica juncea chitinase built on PDB ENTRY 2BAA 1.53 42.23 130862 7824 100 0.188 0.185 0.185 0.222 0.221 RANDOM 21.145
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] 0.05 -0.12 -0.1 -0.31 0.48 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.379 r_dihedral_angle_4_deg 14.944 r_dihedral_angle_3_deg 12.334 r_dihedral_angle_1_deg 4.843 r_scangle_it 3.63 r_scbond_it 2.577 r_mcangle_it 1.674 r_angle_refined_deg 1.134 r_mcbond_it 1.072 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.379 r_dihedral_angle_4_deg 14.944 r_dihedral_angle_3_deg 12.334 r_dihedral_angle_1_deg 4.843 r_scangle_it 3.63 r_scbond_it 2.577 r_mcangle_it 1.674 r_angle_refined_deg 1.134 r_mcbond_it 1.072 r_nbtor_refined 0.315 r_nbd_refined 0.199 r_symmetry_hbond_refined 0.196 r_symmetry_vdw_refined 0.147 r_xyhbond_nbd_refined 0.13 r_chiral_restr 0.087 r_bond_refined_d 0.008 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7664 Nucleic Acid Atoms Solvent Atoms 738 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection