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Endonuclease VII (ENDOVII) Ffrom Phage T4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1E7L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.2 HANGING DROP VAPOUR DIFFUSION DROP SIZE: 1 + 1 UL PROTEIN SOLUTION: 16 MG/ML ENDOVII, 175 MM NACL, 20 MM MGCL2, 2 MM ZNCL2, 10 MM 2-MERCAPTO-ETHANOL, 10 % GLYCEROL, 10 MM MOPS PH6.5. WELL: 16-18% PEG 5000 MME, 200 MM CACL2, 20 MM AMMONIUM SULPHATE, 10 MM 2-MERCAPTO-ETHANOL, 100 MM TRIS PH 8.2, C.A. 1 MM SODIUM AZIDE
Crystal Properties Matthews coefficient Solvent content 2.18 44.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.9 α = 90 b = 37.4 β = 108.2 c = 74 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH NI COATED MIRRORS 1999-01-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS
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 2.8 44.281 99.8 0.096 7.2 3.2 8966
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 2.8 2.9 99.7 0.283 3.2
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 1E7L 2.8 10 8966 413 99.8 0.245 0.2307 0.315 0.3027 RANDOM
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 30.4 p_staggered_tor 18.2 p_planar_tor 5.9 p_scangle_it 3.6 p_mcangle_it 3.3 p_scbond_it 2.3 p_mcbond_it 2.1 p_multtor_nbd 0.263 p_singtor_nbd 0.185 p_planar_d 0.031
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 30.4 p_staggered_tor 18.2 p_planar_tor 5.9 p_scangle_it 3.6 p_mcangle_it 3.3 p_scbond_it 2.3 p_mcbond_it 2.1 p_multtor_nbd 0.263 p_singtor_nbd 0.185 p_planar_d 0.031 p_angle_d 0.022 p_bond_d 0.015 p_plane_restr 0.009 p_angle_deg p_hb_or_metal_coord p_chiral_restr p_xhyhbond_nbd p_xyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2544 Nucleic Acid Atoms Solvent Atoms 30 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling AMoRE phasing