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Mutant D416A of the CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS in complex with a cellobio-derived isofagomine at 1.3 angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BVW PDB ENTRY 2BVW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 PROTEIN WAS CONCENTRATED TO 10MG/ML IN WATER.CRYSTALLISATION IN 200MM CALCIUM ACETATE, 100MM HEPES PH 7.5 AND 21% POLYETHYLENE GLYCOL 5KMME.20 % GLYCEROL WAS ADDED FOR CRYOPROTECTION
Crystal Properties Matthews coefficient Solvent content 2.01 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.357 α = 90 b = 69.842 β = 113.52 c = 51.95 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 ADSC CCD TORROIDAL MIRROR 2002-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.31 15 91.7 0.06 17.9 6.2 77018
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 1.31 1.33 100 0.275 7.6 5.6
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 2BVW 1.31 15 65959 3485 90.2 0.132 0.13 0.1466 0.162 0.1723 RANDOM 12.29
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] 0.13 0.28 -0.2 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.328 r_scangle_it 3.842 r_scbond_it 2.686 r_mcangle_it 2.133 r_angle_refined_deg 1.686 r_mcbond_it 1.501 r_angle_other_deg 1.019 r_symmetry_vdw_other 0.33 r_nbd_other 0.262 r_nbd_refined 0.259
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.328 r_scangle_it 3.842 r_scbond_it 2.686 r_mcangle_it 2.133 r_angle_refined_deg 1.686 r_mcbond_it 1.501 r_angle_other_deg 1.019 r_symmetry_vdw_other 0.33 r_nbd_other 0.262 r_nbd_refined 0.259 r_symmetry_hbond_refined 0.147 r_metal_ion_refined 0.143 r_xyhbond_nbd_refined 0.124 r_chiral_restr 0.112 r_nbtor_other 0.085 r_symmetry_vdw_refined 0.077 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.008 r_gen_planes_other 0.006 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_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 2804 Nucleic Acid Atoms Solvent Atoms 521 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing