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GCN4pLI derivative with alpha/beta/acyclic-gamma amino acid substitution pattern
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GCL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 298 0.1 M NaOAc, 8% w/v PEG4000, cryoprotected by addition of 24% PEG4000 to mother liquor, precipitant solution combined 1+1 uL with peptide stock at 10 mg/mL, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.88 34.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.92 α = 90 b = 51.49 β = 128.87 c = 31.03 γ = 90
Symmetry Space Group C 1 2 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 CCD MARMOSAIC 225 mm CCD 2012-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
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 1.7 17.62 98.3 0.034 23.38 3.72 6350 -3 28.775
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-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 1GCL 1.7 17.62 6053 298 99.44 0.2525 0.2506 0.248 0.295 0.2882 RANDOM 22.6426
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] -0.08 -0.05 -0.82 0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.199 r_sphericity_free 15.398 r_dihedral_angle_3_deg 13.038 r_dihedral_angle_4_deg 11.932 r_sphericity_bonded 4.816 r_dihedral_angle_1_deg 3.184 r_rigid_bond_restr 2.209 r_angle_other_deg 1.004 r_angle_refined_deg 0.906 r_chiral_restr 0.048
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.199 r_sphericity_free 15.398 r_dihedral_angle_3_deg 13.038 r_dihedral_angle_4_deg 11.932 r_sphericity_bonded 4.816 r_dihedral_angle_1_deg 3.184 r_rigid_bond_restr 2.209 r_angle_other_deg 1.004 r_angle_refined_deg 0.906 r_chiral_restr 0.048 r_bond_refined_d 0.005 r_bond_other_d 0.002 r_gen_planes_refined 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 535 Nucleic Acid Atoms Solvent Atoms 24 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction EMBL data collection XDS data reduction PHASER phasing