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3-methylbenzylazide in complex with T4 L99A/M102Q
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LGU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.1 277 2.2M sodium-potassium phosphate, 0.05M beta-mercaptoethanol, 0.05M 2-hydroxyethyldisulfide, pH 7.1, vapor diffusion, hanging drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.78 55.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.362 α = 90 b = 60.362 β = 90 c = 97.368 γ = 120
Symmetry Space Group P 32 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 IMAGE PLATE RIGAKU RAXIS IV 2007-04-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 1.633 52.27 96.8 0.064 12.8 3.5 25336 25336
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) 1.633 1.69 93.2 0.451 3.7 2368
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 THROUGHOUT 1LGU 1.633 52.27 25310 25310 1276 97 0.209 0.209 0.208 0.2007 0.24 0.2342 RANDOM 20.494
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] 0.47 0.24 0.47 -0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.556 r_dihedral_angle_4_deg 12.401 r_dihedral_angle_3_deg 12.346 r_sphericity_free 5.407 r_dihedral_angle_1_deg 5.252 r_sphericity_bonded 3.644 r_scangle_it 3.625 r_scbond_it 2.675 r_mcangle_it 1.601 r_rigid_bond_restr 1.594
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.556 r_dihedral_angle_4_deg 12.401 r_dihedral_angle_3_deg 12.346 r_sphericity_free 5.407 r_dihedral_angle_1_deg 5.252 r_sphericity_bonded 3.644 r_scangle_it 3.625 r_scbond_it 2.675 r_mcangle_it 1.601 r_rigid_bond_restr 1.594 r_angle_refined_deg 1.283 r_mcbond_it 1.165 r_nbtor_refined 0.303 r_nbd_refined 0.208 r_symmetry_vdw_refined 0.169 r_xyhbond_nbd_refined 0.139 r_symmetry_hbond_refined 0.138 r_chiral_restr 0.078 r_bond_refined_d 0.013 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1309 Nucleic Acid Atoms Solvent Atoms 239 Heterogen Atoms 16
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection REFMAC phasing