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Structure of Peptidyl-alpha-hydroxyglycine alpha-Amidating Lyase (PAL)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.8 293 0.1M sodium acetate pH=4.8, 0.2mM zinc(II) acetate, 0.2mM iron(III) chloride - 0.2ml mother liquor in reservoir, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.59 52.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.176 α = 90 b = 75.056 β = 90 c = 97.474 γ = 90
Symmetry Space Group P 21 21 21
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 4r 2007-11-18 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4A 1.28241 NSLS X4A
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 2.35 39.22 99.7 0.06 60.9 11.3 16524 16524
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 2.35 2.43 96.9 0.49 4.2 7.9 1560
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MAD THROUGHOUT 2.35 39.22 16524 15620 847 99.63 0.20615 0.20321 0.2677 0.26333 0.307 RANDOM 55.026
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] -1.03 3.19 -2.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.686 r_dihedral_angle_4_deg 21.375 r_dihedral_angle_3_deg 17.18 r_dihedral_angle_1_deg 7.147 r_angle_refined_deg 1.215 r_scangle_it 1.112 r_scbond_it 0.773 r_mcangle_it 0.562 r_mcbond_it 0.328 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.686 r_dihedral_angle_4_deg 21.375 r_dihedral_angle_3_deg 17.18 r_dihedral_angle_1_deg 7.147 r_angle_refined_deg 1.215 r_scangle_it 1.112 r_scbond_it 0.773 r_mcangle_it 0.562 r_mcbond_it 0.328 r_nbtor_refined 0.307 r_nbd_refined 0.193 r_symmetry_hbond_refined 0.164 r_symmetry_vdw_refined 0.163 r_xyhbond_nbd_refined 0.121 r_chiral_restr 0.088 r_metal_ion_refined 0.074 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2609 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 19
Software Software Software Name Purpose SHARP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling