☰ Navigation Tabs
Native fungus laccase from Trametes hirsuta
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GYC PDB ENTRY 1GYC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 HANGING DROP 7 299 10% PEG 1000, 0.02M potassium phosphate buffer, pH7.0, HANGING DROP, temperature 299.0K
Crystal Properties Matthews coefficient Solvent content 2.41 49.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.293 α = 90 b = 76.345 β = 90 c = 129.661 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 MAR 2002-11-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 1.38 EMBL/DESY, HAMBURG BW7A
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 65.9 94.7 0.074 19.8 4.6 46382 1 1 31.1
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 1.84 1.86 81.3 0.58 2.7 4.6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1GYC 1.8 65.9 46096 2330 94.55 0.182 0.18 0.233 0.2551 RANDOM 31.277
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] -1.71 2.65 -0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.337 r_dihedral_angle_4_deg 17.551 r_dihedral_angle_3_deg 12.409 r_dihedral_angle_1_deg 7.003 r_scangle_it 3.328 r_scbond_it 2.416 r_angle_refined_deg 1.826 r_mcangle_it 1.604 r_mcbond_it 1.059 r_angle_other_deg 0.999
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.337 r_dihedral_angle_4_deg 17.551 r_dihedral_angle_3_deg 12.409 r_dihedral_angle_1_deg 7.003 r_scangle_it 3.328 r_scbond_it 2.416 r_angle_refined_deg 1.826 r_mcangle_it 1.604 r_mcbond_it 1.059 r_angle_other_deg 0.999 r_mcbond_other 0.321 r_symmetry_vdw_other 0.248 r_nbtor_refined 0.227 r_nbd_other 0.216 r_nbd_refined 0.214 r_metal_ion_refined 0.186 r_symmetry_hbond_refined 0.169 r_symmetry_vdw_refined 0.168 r_xyhbond_nbd_refined 0.149 r_nbtor_other 0.109 r_chiral_restr 0.107 r_bond_refined_d 0.02 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3795 Nucleic Acid Atoms Solvent Atoms 275 Heterogen Atoms 173
Software Software Software Name Purpose MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction SCALEPACK data scaling