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Crystal structure of Pyrococcus horikoshii CutA in the presence of 3M guanidine hydrochloride
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J2V PDB ENTRY 1J2V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Oil batch method 4 293 Acetate buffer (pH 4.0), PEG4000, Ammonium sulfate, 3M guanidine hydrochloride, Oil batch method, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.87 33.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.21 α = 90 b = 53.21 β = 90 c = 59.665 γ = 120
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 2003-03-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 0.9 SPring-8 BL38B1
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 1.6 40 99.6 0.039 19.9 3.9 24828 24828 -3 18.3
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 1.6 1.66 100 0.221 3.8 2499
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-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 1J2V 1.6 20 24828 2502 99.6 0.214 0.2096 0.253 0.2489 RANDOM 21.06
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] 0.123 -0.731 0.123 -0.246
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.7 c_angle_deg 1.7 c_improper_angle_d 1.12 c_bond_d 0.017 c_mcbond_it c_mcangle_it c_scbond_it c_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1726 Nucleic Acid Atoms Solvent Atoms 125 Heterogen Atoms 16
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing CNS refinement