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Crystal structure of the 1E9 PheL89Ser/LeuH47Trp/MetH100bPhe Fab in complex with a 39A11 transition state analog
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other 1E9 PheL89Ser/LeuH47Trp/MetH100bPhe Fab apo structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 2.25M ammoniumsulfate, 0.15M sodiumcitrate, 0.01% PEG20000, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 4.51 72.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.203 α = 90 b = 128.203 β = 90 c = 92.144 γ = 120
Symmetry Space Group P 31 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 ADSC QUANTUM 210 2005-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.059658 ALS 8.2.1
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 2.55 50 98.6 0.071 14.6 4.1 28353
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 2.55 2.64 99.9 0.55 1.7
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 rigid body refinement THROUGHOUT 1E9 PheL89Ser/LeuH47Trp/MetH100bPhe Fab apo structure 2.55 50 26768 1365 97.89 0.20907 0.20713 0.2054 0.24825 0.2461 RANDOM 79.982
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] 4.05 2.03 4.05 -6.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.272 r_dihedral_angle_4_deg 19.501 r_dihedral_angle_3_deg 18.02 r_dihedral_angle_1_deg 6.814 r_scangle_it 2.839 r_scbond_it 1.839 r_angle_refined_deg 1.74 r_mcangle_it 1.145 r_mcbond_it 0.656 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.272 r_dihedral_angle_4_deg 19.501 r_dihedral_angle_3_deg 18.02 r_dihedral_angle_1_deg 6.814 r_scangle_it 2.839 r_scbond_it 1.839 r_angle_refined_deg 1.74 r_mcangle_it 1.145 r_mcbond_it 0.656 r_nbtor_refined 0.315 r_nbd_refined 0.218 r_symmetry_vdw_refined 0.199 r_xyhbond_nbd_refined 0.166 r_symmetry_hbond_refined 0.134 r_chiral_restr 0.097 r_bond_refined_d 0.019 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3312 Nucleic Acid Atoms Solvent Atoms 65 Heterogen Atoms 190
Software Software Software Name Purpose BOS data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing