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CBM29_1, A Family 29 Carbohydrate Binding Module from Piromyces equi
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GWK PDB ENTRY 1GWK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.6M LITHIUM ACETATE, 20% PEG 3350. WITH PROTEIN AT A FINAL CONCENTRATION OF 10 MG / ML FINAL.
Crystal Properties Matthews coefficient Solvent content 1.9 33.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 30.054 α = 90 b = 57.512 β = 90 c = 76.13 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 ADSC CCD A ZEISS MIRROR WITH DIMENSIONS OF 800X95X78 MM3. MADE OF MONOCRYSTALLINE SILICON AND COATED WITH 20-50 NM RH. SPECIFICATIONS SAGITTAL RADIUS 77.15, BENDING RADIUS 9KM 2002-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 1.5 46.12 100 0.04 40 5 21737 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 1.5 1.53 99 0.1 13 3.2
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1GWK 1.5 46.13 20621 1114 99.6 0.141 0.14 0.1546 0.164 RANDOM 10.64
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] -0.11 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.165 r_dihedral_angle_3_deg 13.58 r_dihedral_angle_4_deg 10.77 r_dihedral_angle_1_deg 7.295 r_scangle_it 3.226 r_angle_other_deg 2.688 r_scbond_it 2.351 r_angle_refined_deg 1.41 r_mcangle_it 1.266 r_mcbond_it 1.051
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.165 r_dihedral_angle_3_deg 13.58 r_dihedral_angle_4_deg 10.77 r_dihedral_angle_1_deg 7.295 r_scangle_it 3.226 r_angle_other_deg 2.688 r_scbond_it 2.351 r_angle_refined_deg 1.41 r_mcangle_it 1.266 r_mcbond_it 1.051 r_symmetry_vdw_other 0.27 r_nbd_refined 0.237 r_nbtor_refined 0.22 r_symmetry_hbond_refined 0.217 r_nbd_other 0.178 r_xyhbond_nbd_refined 0.177 r_symmetry_vdw_refined 0.177 r_chiral_restr 0.087 r_nbtor_other 0.082 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_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 1193 Nucleic Acid Atoms Solvent Atoms 250 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing