☰ Navigation Tabs
Crystal Structure of Caenorhabditis elegans ACDH-11 in complex with C11-CoA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4Y9L D_1000207001
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 289 PEG 3350, Tris, magnesium formate
Crystal Properties Matthews coefficient Solvent content 2.76 55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 138.561 α = 90 b = 116.676 β = 124.02 c = 115.289 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 ADSC QUANTUM 315r 2009-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0 Photon Factory BL-5A
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 1.8 50 99.8 0.061 11.4 7.5 140058 139311 28.6
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 1.8 1.83 100 0.78 2.2 7.3 6998
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 D_1000207001 1.8 50 132919 6857 99.59 0.1475 0.1455 0.1569 0.186 0.1954 RANDOM 45.688
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] -0.1 -0.07 0.35 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.514 r_dihedral_angle_4_deg 20.171 r_dihedral_angle_3_deg 14.185 r_dihedral_angle_1_deg 6.408 r_mcangle_it 2.621 r_angle_refined_deg 1.972 r_mcbond_it 1.924 r_mcbond_other 1.922 r_angle_other_deg 0.948 r_chiral_restr 0.154
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.514 r_dihedral_angle_4_deg 20.171 r_dihedral_angle_3_deg 14.185 r_dihedral_angle_1_deg 6.408 r_mcangle_it 2.621 r_angle_refined_deg 1.972 r_mcbond_it 1.924 r_mcbond_other 1.922 r_angle_other_deg 0.948 r_chiral_restr 0.154 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9235 Nucleic Acid Atoms Solvent Atoms 1120 Heterogen Atoms 226
Software Software Software Name Purpose HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing Coot model building