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Ribonucleotide Reductase Protein R1E from Salmonella typhimurium
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RLR poly-alanin model of ribonucleotide reductase protein R1 from E.coli
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 288 sodium malonate, magnesium chloride, DTT, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 4.41 72.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.079 α = 90 b = 99.079 β = 90 c = 290.285 γ = 90
Symmetry Space Group P 43 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 ADSC QUANTUM 4 mirrors 2001-09-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.9393 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.99 40 99.6 0.114 0.114 19.1 14.3 30043 30043
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.99 3.05 100 0.42 0.42 6.6
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 poly-alanin model of ribonucleotide reductase protein R1 from E.coli 2.99 19.96 28433 28433 1518 19.96 0.2187 0.21878 0.21754 0.2139 0.24297 0.2393 RANDOM 55.633
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] -1.04 -1.04 2.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.818 r_dihedral_angle_1_deg 3.82 r_scangle_it 2.303 r_angle_refined_deg 1.77 r_mcangle_it 1.279 r_scbond_it 1.232 r_angle_other_deg 0.884 r_mcbond_it 0.673 r_symmetry_vdw_other 0.332 r_nbd_refined 0.273
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.818 r_dihedral_angle_1_deg 3.82 r_scangle_it 2.303 r_angle_refined_deg 1.77 r_mcangle_it 1.279 r_scbond_it 1.232 r_angle_other_deg 0.884 r_mcbond_it 0.673 r_symmetry_vdw_other 0.332 r_nbd_refined 0.273 r_nbd_other 0.251 r_symmetry_vdw_refined 0.221 r_xyhbond_nbd_refined 0.148 r_symmetry_hbond_refined 0.143 r_xyhbond_nbd_other 0.111 r_chiral_restr 0.094 r_nbtor_other 0.061 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5447 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing