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Crystal structure of of LamAcat from Zobellia galactanivorans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ILN PDB ENTRY 3ILN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.2 277 MONO-CRYSTALS WERE GROWN AT 4 DEGREE CELSIUS IN HANGING DROPS COMPOSED OF 2 MICROL OF ENZYME AT 10 MG.ML-1 AND 2 MICROL OF RESERVOIR SOLUTION CONTAINING 24% PEG 3350 AND 100 MM NA CITRATE PH 5.2
Crystal Properties Matthews coefficient Solvent content 2.08 40.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.559 α = 90 b = 76.564 β = 90 c = 142.119 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 QUANTUM 315r 2010-05-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 1.45 47.37 99.7 0.1 11 6.3 86903
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 1.45 1.53 99.7 0.46 3.5 5.7
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 3ILN 1.5 71.06 74179 3929 99.14 0.139 0.13752 0.1382 0.1664 0.1657 RANDOM 18.139
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] 1.36 -0.4 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.541 r_dihedral_angle_4_deg 27.51 r_sphericity_free 19.255 r_dihedral_angle_3_deg 12.705 r_sphericity_bonded 11.66 r_rigid_bond_restr 9.749 r_dihedral_angle_1_deg 7.534 r_angle_refined_deg 2.29 r_chiral_restr 0.242 r_bond_refined_d 0.028
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.541 r_dihedral_angle_4_deg 27.51 r_sphericity_free 19.255 r_dihedral_angle_3_deg 12.705 r_sphericity_bonded 11.66 r_rigid_bond_restr 9.749 r_dihedral_angle_1_deg 7.534 r_angle_refined_deg 2.29 r_chiral_restr 0.242 r_bond_refined_d 0.028 r_gen_planes_refined 0.016 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4050 Nucleic Acid Atoms Solvent Atoms 526 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing