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5'-D(*GP*CP*AP*GP*AP*CP*GP*TP*CP*TP*GP*C)-3' Methionine Repressor binding site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 423D NDB ID BD0001 (PDB ID 423D)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 295 MPD, sodium cacodylate, cobalt hexamine, magnesium chloride, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.87 56.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.98 α = 82.15 b = 40.346 β = 69.13 c = 40.255 γ = 81.44
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 2002-10-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C 1.1004 NSLS X26C
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 2.5 99 97.7 0.088 4.3 7790 7790
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 2.5 2.57 97.6 97.6 0.199
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 NDB ID BD0001 (PDB ID 423D) 2.5 39.84 7684 7684 624 98.34 0.239 0.239 0.235 0.229 0.284 0.2711 RANDOM 51.029
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] 0.71 -0.63 -2.49 -0.51 0.23 1.7
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 12.396 r_scbond_it 8.551 r_angle_refined_deg 7.661 r_xyhbond_nbd_refined 0.35 r_symmetry_vdw_refined 0.247 r_nbd_refined 0.228 r_chiral_restr 0.132 r_gen_planes_refined 0.049 r_bond_refined_d 0.018
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 1458 Solvent Atoms 56 Heterogen Atoms 22
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling EPMR phasing