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CELLVIBRIO JAPONICUS MANNANASE CJMAN26C MANNOBIOSE-BOUND FORM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J9Y PDB ENTRY 1J9Y
Crystallization Crystal Properties Matthews coefficient Solvent content 2.7 54.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.334 α = 90 b = 84.334 β = 90 c = 243.295 γ = 120
Symmetry Space Group P 61 2 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 CCD ADSC CCD 2007-04-13 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 1.8 20 99.9 0.09 16.2 9.5 48533 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 1.8 1.86 100 0.41 2.9 8.8
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 1J9Y 1.8 19.94 45994 2450 99.82 0.15137 0.15005 0.1596 0.17648 0.1833 RANDOM 12.562
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] 0.01 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.725 r_dihedral_angle_4_deg 14.922 r_dihedral_angle_3_deg 11.71 r_dihedral_angle_1_deg 5.942 r_scangle_it 2.865 r_scbond_it 1.927 r_angle_refined_deg 1.223 r_mcangle_it 1.207 r_angle_other_deg 1.12 r_mcbond_it 0.731
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.725 r_dihedral_angle_4_deg 14.922 r_dihedral_angle_3_deg 11.71 r_dihedral_angle_1_deg 5.942 r_scangle_it 2.865 r_scbond_it 1.927 r_angle_refined_deg 1.223 r_mcangle_it 1.207 r_angle_other_deg 1.12 r_mcbond_it 0.731 r_chiral_restr 0.074 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 r_bond_other_d 0.001 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_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 2927 Nucleic Acid Atoms Solvent Atoms 319 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling MOLREP phasing