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Xylotetraose bound to X-2 engineered mutated CBM4-2 Carbohydrate Binding Module from a Thermostable Rhodothermus marinus Xylanase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Y6J PDB ENTRY 2Y6J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 1.2 M SODIUM CITRATE PH 6.4
Crystal Properties Matthews coefficient Solvent content 2.1 42.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.67 α = 90 b = 50.35 β = 90 c = 62.48 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 MARRESEARCH SX-165 MULTILAYER MIRROR 2008-09-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 MAX II I911-2
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 1.36 30 96.2 0.04 23 5.3 32599 -3
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 1.36 1.4 94.9 0.53 3.3 4.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB ENTRY 2Y6J 1.36 30 32599 1630 92 0.126 0.123 0.1271 0.183 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 21 1233 1530.3
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.089 s_zero_chiral_vol 0.066 s_non_zero_chiral_vol 0.066 s_similar_adp_cmpnt 0.049 s_anti_bump_dis_restr 0.041 s_from_restr_planes 0.0311 s_angle_d 0.029 s_bond_d 0.011 s_rigid_bond_adp_cmpnt 0.003 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1249 Nucleic Acid Atoms Solvent Atoms 231 Heterogen Atoms 52
Software Software Software Name Purpose SHELXL-97 refinement XDS data reduction XSCALE data scaling REFMAC phasing