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CRYSTAL STRUCTURE COMPLEX BETWEEN THE WILD-TYPE LACTOCOCCUS LACTIS FPG (MUTM) AND A FAPY-DG CONTAINING DNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TDZ PDB ENTRY 1TDZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 303 HEPES, SODIUM CITRATE, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 303K
Crystal Properties Matthews coefficient Solvent content 3.52 64.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.513 α = 90 b = 92.513 β = 90 c = 142.867 γ = 90
Symmetry Space Group P 41 21 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 MARRESEARCH 2004-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.92004 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.95 17.247 91.4 0.069 7.7 45806 41650
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2.06 91.4 0.284 2.6 4.8 6134
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1TDZ 1.95 17.247 39561 39561 2089 90.87 0.17805 0.17805 0.1764 0.1824 0.20932 0.2136 RANDOM 35.412
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] 0.33 0.33 -0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.416 r_dihedral_angle_4_deg 17.948 r_dihedral_angle_3_deg 11.965 r_dihedral_angle_1_deg 5.971 r_scangle_it 3.962 r_scbond_it 2.727 r_angle_refined_deg 1.776 r_mcangle_it 1.745 r_mcbond_it 1.223 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.416 r_dihedral_angle_4_deg 17.948 r_dihedral_angle_3_deg 11.965 r_dihedral_angle_1_deg 5.971 r_scangle_it 3.962 r_scbond_it 2.727 r_angle_refined_deg 1.776 r_mcangle_it 1.745 r_mcbond_it 1.223 r_nbtor_refined 0.303 r_nbd_refined 0.211 r_symmetry_hbond_refined 0.207 r_xyhbond_nbd_refined 0.161 r_symmetry_vdw_refined 0.133 r_chiral_restr 0.119 r_bond_refined_d 0.02 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2128 Nucleic Acid Atoms 569 Solvent Atoms 397 Heterogen Atoms 7
Software Software Software Name Purpose Xnemo data collection SCALA data scaling AMoRE phasing REFMAC refinement XNEMO data reduction CCP4 data scaling