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Crystal structure of the Triticum aestivum xylanase inhibitor-IIA in complex with bacillus subtilis xylanase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1T6E PDB ENTRIES 1T6E for chains A and C; 1C5H for the chains B and D experimental model PDB 1C5H PDB ENTRIES 1T6E for chains A and C; 1C5H for the chains B and D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 277 18% (w/v) polyethylene glycol 4000, 0.18M ammonium sulfate, 0.1M sodium acetate buffer , pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.53 51.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.351 α = 90 b = 60.3 β = 101.49 c = 134.187 γ = 90
Symmetry Space Group P 1 21 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 MAR CCD 165 mm 2005-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 0.811 EMBL/DESY, HAMBURG BW7A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.38 50 97.5 0.076 7.7 48031 45604
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.38 2.44 97.5 0.341 3.8 955
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 (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 ENTRIES 1T6E for chains A and C; 1C5H for the chains B and D 2.39 38.52 45713 44570 2427 98.77 0.22601 0.22344 0.2358 0.27459 0.2783 RANDOM 38.726
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] 0.58 1.15 0.58 -0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 9.191 r_scangle_it 4.31 r_scbond_it 2.631 r_angle_refined_deg 2.237 r_mcangle_it 1.951 r_angle_other_deg 1.222 r_mcbond_it 1.063 r_symmetry_vdw_other 0.351 r_symmetry_vdw_refined 0.347 r_nbd_other 0.265
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 9.191 r_scangle_it 4.31 r_scbond_it 2.631 r_angle_refined_deg 2.237 r_mcangle_it 1.951 r_angle_other_deg 1.222 r_mcbond_it 1.063 r_symmetry_vdw_other 0.351 r_symmetry_vdw_refined 0.347 r_nbd_other 0.265 r_nbd_refined 0.242 r_xyhbond_nbd_refined 0.213 r_chiral_restr 0.128 r_nbtor_other 0.1 r_symmetry_hbond_refined 0.068 r_bond_refined_d 0.027 r_gen_planes_refined 0.01 r_gen_planes_other 0.009 r_bond_other_d 0.004 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8240 Nucleic Acid Atoms Solvent Atoms 42 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection CNS refinement REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing