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Nucleophile-disabled Lam16A mutant holds laminariheptaose (L7) in a cyclical conformation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CL2 PDB ENTRY 2CL2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 293 8 MG/ML PROTEIN SOLUTION IN 10 MM NAOAC WAS MIXED WITH AN EQUAL VOLUME OF CRYSTALLIZATION BUFFER CONTAINING 20% PEG 3350, 0.2 M AMMONIUM NITRATE AND 10 MM SODIUM ACETATE BUFFER, PH 5.0, AT 20 DEGREES. SOAKING: 24 H IN 5 MM LAMINAROHEPTASACCHARIDE. CRYOPROTECTANT CONTAINED 35 % (W/V) PEG 3350, 0.2 M AMMONIUM NITRATE AND 10 MM SODIUM ACETATE BUFFER, PH 5.0
Crystal Properties Matthews coefficient Solvent content 2 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.273 α = 90 b = 47.91 β = 90 c = 152.4 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 COLLIMATOR AND FOCUSING MIRROR 2006-09-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-3 MAX II I911-3
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 1.4 23.8 98.2 0.08 16.6 6.3 56288 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 1.4 1.48 99.2 0.4 3.3 4.4
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 2CL2 1.4 23.843 56165 2851 99.781 0.171 0.1696 0.1674 0.194 0.1933 RANDOM 12.998
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.486 r_dihedral_angle_4_deg 17.745 r_dihedral_angle_3_deg 10.593 r_dihedral_angle_1_deg 6.648 r_scangle_it 2.95 r_scbond_it 1.965 r_angle_refined_deg 1.615 r_mcangle_it 1.482 r_mcbond_it 0.842 r_nbtor_refined 0.321
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.486 r_dihedral_angle_4_deg 17.745 r_dihedral_angle_3_deg 10.593 r_dihedral_angle_1_deg 6.648 r_scangle_it 2.95 r_scbond_it 1.965 r_angle_refined_deg 1.615 r_mcangle_it 1.482 r_mcbond_it 0.842 r_nbtor_refined 0.321 r_symmetry_vdw_refined 0.229 r_nbd_refined 0.205 r_symmetry_hbond_refined 0.162 r_chiral_restr 0.145 r_xyhbond_nbd_refined 0.119 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_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 2244 Nucleic Acid Atoms Solvent Atoms 363 Heterogen Atoms 161
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling SCALA phasing