data_I2K # _chem_comp.id I2K _chem_comp.name 3-sialyllactose _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H39 N O19" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-02-08 _chem_comp.pdbx_modified_date 2022-12-02 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 633.551 _chem_comp.one_letter_code ? _chem_comp.three_letter_code I2K _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 7QY8 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal I2K N1 N1 N 0 1 N N N -7.407 6.839 24.425 -4.752 2.010 0.401 N1 I2K 1 I2K C4 C1 C 0 1 N N S -6.543 8.675 23.082 -3.918 -0.253 -0.011 C4 I2K 2 I2K C5 C2 C 0 1 N N R -7.747 9.017 22.209 -5.323 -0.844 0.117 C5 I2K 3 I2K C6 C3 C 0 1 N N R -7.844 10.374 21.471 -5.224 -2.302 0.570 C6 I2K 4 I2K C7 C4 C 0 1 N N N -8.865 10.361 20.346 -6.628 -2.905 0.658 C7 I2K 5 I2K C8 C5 C 0 1 N N S -4.353 9.331 23.626 -1.802 -0.598 -1.086 C8 I2K 6 I2K C10 C6 C 0 1 N N S -2.054 9.340 21.143 0.259 0.719 1.660 C10 I2K 7 I2K C13 C7 C 0 1 N N S -3.527 8.163 18.979 2.487 0.353 -0.137 C13 I2K 8 I2K C15 C8 C 0 1 N N R -5.457 7.346 16.350 5.109 0.804 -2.036 C15 I2K 9 I2K C17 C9 C 0 1 N N R -3.096 6.435 15.931 6.014 -0.450 -0.073 C17 I2K 10 I2K C20 C10 C 0 1 N N R -3.790 7.711 20.411 1.243 -0.531 -0.261 C20 I2K 11 I2K C21 C11 C 0 1 N N N -3.411 10.544 23.654 -1.079 -1.524 -2.030 C21 I2K 12 I2K C22 C12 C 0 1 N N N -4.430 8.569 24.962 -1.811 0.818 -1.667 C22 I2K 13 I2K C1 C13 C 0 1 N N N -8.707 5.396 23.030 -6.156 3.972 0.951 C1 I2K 14 I2K C2 C14 C 0 1 N N N -8.636 6.479 24.057 -5.395 3.115 -0.028 C2 I2K 15 I2K O1 O1 O 0 1 N N N -9.642 6.968 24.557 -5.360 3.419 -1.201 O1 I2K 16 I2K C3 C15 C 0 1 N N S -6.946 8.220 24.489 -4.013 1.177 -0.550 C3 I2K 17 I2K O2 O2 O 0 1 N N N -7.803 7.991 21.214 -6.069 -0.096 1.080 O2 I2K 18 I2K O3 O3 O 0 1 N N N -8.202 11.415 22.384 -4.446 -3.042 -0.373 O3 I2K 19 I2K O4 O4 O 0 1 N N N -8.533 11.272 19.300 -6.545 -4.228 1.191 O4 I2K 20 I2K O5 O5 O 0 1 N N N -5.646 9.793 23.192 -3.147 -1.050 -0.913 O5 I2K 21 I2K O6 O6 O 0 1 N N N -3.757 8.416 22.692 -1.135 -0.590 0.178 O6 I2K 22 I2K C9 C16 C 0 1 N N S -3.489 8.869 21.342 0.019 0.252 0.221 C9 I2K 23 I2K O7 O7 O 0 1 N N N -1.122 8.331 21.538 0.397 -0.418 2.514 O7 I2K 24 I2K C11 C17 C 0 1 N N R -1.826 9.704 19.663 1.540 1.556 1.710 C11 I2K 25 I2K C12 C18 C 0 1 N N N -0.396 10.082 19.329 1.819 1.976 3.154 C12 I2K 26 I2K O8 O8 O 0 1 N N N 0.227 10.828 20.375 2.948 2.852 3.186 O8 I2K 27 I2K O9 O9 O 0 1 N N N -2.172 8.562 18.832 2.634 0.778 1.220 O9 I2K 28 I2K O10 O10 O 0 1 N N N -3.787 7.087 18.122 3.642 -0.390 -0.532 O10 I2K 29 I2K C14 C19 C 0 1 N N R -3.965 7.409 16.718 4.840 0.386 -0.589 C14 I2K 30 I2K O11 O11 O 0 1 N N N -5.642 7.842 15.022 6.371 1.470 -2.112 O11 I2K 31 I2K C16 C20 C 0 1 N N N -6.358 8.127 17.288 4.003 1.752 -2.506 C16 I2K 32 I2K O12 O12 O 0 1 N N N -6.105 9.530 17.225 3.926 2.871 -1.621 O12 I2K 33 I2K O13 O13 O 0 1 N N N -3.456 6.462 14.546 6.235 -1.553 -0.954 O13 I2K 34 I2K C18 C21 C 0 1 N N R -3.187 4.995 16.454 5.691 -0.972 1.328 C18 I2K 35 I2K O14 O14 O 0 1 N N N -2.883 4.099 15.393 4.453 -1.686 1.297 O14 I2K 36 I2K C19 C22 C 0 1 N N N -2.259 4.742 17.651 6.791 -1.895 1.786 C19 I2K 37 I2K O15 O15 O 0 1 N N N -2.641 4.101 18.588 6.541 -3.045 2.058 O15 I2K 38 I2K O16 O16 O 0 1 N N N -5.139 7.277 20.571 1.061 -0.910 -1.627 O16 I2K 39 I2K O17 O17 O 0 1 N N N -2.383 10.510 24.289 -0.446 -2.457 -1.594 O17 I2K 40 I2K O18 O18 O 0 1 N N N -3.678 11.512 22.978 -1.137 -1.312 -3.354 O18 I2K 41 I2K C23 C23 C 0 1 N N S -5.832 8.350 25.531 -2.600 1.740 -0.732 C23 I2K 42 I2K O19 O19 O 0 1 N N N -5.816 7.148 26.306 -1.945 1.808 0.536 O19 I2K 43 I2K H4 H1 H 0 1 N N N -6.761 6.117 24.673 -4.777 1.769 1.341 H4 I2K 44 I2K H6 H2 H 0 1 N N N -6.011 7.840 22.603 -3.437 -0.242 0.967 H6 I2K 45 I2K H7 H3 H 0 1 N N N -8.642 8.933 22.843 -5.827 -0.797 -0.848 H7 I2K 46 I2K H9 H4 H 0 1 N N N -6.857 10.593 21.037 -4.747 -2.347 1.549 H9 I2K 47 I2K H11 H5 H 0 1 N N N -8.916 9.345 19.927 -7.248 -2.289 1.309 H11 I2K 48 I2K H12 H6 H 0 1 N N N -9.847 10.638 20.757 -7.070 -2.942 -0.337 H12 I2K 49 I2K H15 H7 H 0 1 N N N -1.898 10.246 21.748 -0.585 1.324 1.992 H15 I2K 50 I2K H21 H8 H 0 1 N N N -4.195 9.006 18.748 2.378 1.226 -0.781 H21 I2K 51 I2K H23 H9 H 0 1 N N N -5.765 6.291 16.385 5.125 -0.080 -2.672 H23 I2K 52 I2K H28 H10 H 0 1 N N N -2.050 6.761 16.034 6.910 0.169 -0.033 H28 I2K 53 I2K H33 H11 H 0 1 N N N -3.103 6.885 20.647 1.369 -1.424 0.352 H33 I2K 54 I2K H35 H12 H 0 1 N N N -3.970 7.581 24.813 -0.788 1.181 -1.759 H35 I2K 55 I2K H36 H13 H 0 1 N N N -3.850 9.135 25.706 -2.284 0.805 -2.650 H36 I2K 56 I2K H1 H14 H 0 1 N N N -9.760 5.148 22.831 -5.474 4.344 1.715 H1 I2K 57 I2K H2 H15 H 0 1 N N N -8.229 5.740 22.101 -6.605 4.813 0.424 H2 I2K 58 I2K H3 H16 H 0 1 N N N -8.184 4.503 23.402 -6.939 3.378 1.421 H3 I2K 59 I2K H5 H17 H 0 1 N N N -7.784 8.854 24.816 -4.530 1.172 -1.509 H5 I2K 60 I2K H8 H18 H 0 1 N N N -8.539 8.151 20.635 -5.678 -0.094 1.965 H8 I2K 61 I2K H10 H19 H 0 1 N N N -8.258 12.241 21.917 -4.812 -3.045 -1.268 H10 I2K 62 I2K H13 H20 H 0 1 N N N -9.196 11.230 18.621 -7.399 -4.673 1.276 H13 I2K 63 I2K H14 H21 H 0 1 N N N -4.165 9.701 21.095 -0.137 1.118 -0.422 H14 I2K 64 I2K H16 H22 H 0 1 N N N -0.236 8.648 21.405 0.552 -0.196 3.443 H16 I2K 65 I2K H17 H23 H 0 1 N N N -2.481 10.551 19.411 1.418 2.444 1.090 H17 I2K 66 I2K H18 H24 H 0 1 N N N 0.182 9.162 19.158 0.947 2.492 3.557 H18 I2K 67 I2K H19 H25 H 0 1 N N N -0.396 10.690 18.413 2.029 1.092 3.756 H19 I2K 68 I2K H20 H26 H 0 1 N N N 1.118 11.043 20.124 3.183 3.159 4.072 H20 I2K 69 I2K H22 H27 H 0 1 N N N -3.605 8.431 16.528 4.727 1.275 0.032 H22 I2K 70 I2K H24 H28 H 0 1 N N N -6.564 7.803 14.794 7.120 0.928 -1.829 H24 I2K 71 I2K H25 H29 H 0 1 N N N -7.406 7.942 17.010 4.228 2.101 -3.514 H25 I2K 72 I2K H26 H30 H 0 1 N N N -6.185 7.781 18.318 3.049 1.224 -2.509 H26 I2K 73 I2K H27 H31 H 0 1 N N N -6.686 9.984 17.824 3.245 3.514 -1.859 H27 I2K 74 I2K H29 H32 H 0 1 N N N -2.909 5.852 14.064 5.477 -2.148 -1.038 H29 I2K 75 I2K H30 H33 H 0 1 N N N -4.221 4.824 16.788 5.609 -0.133 2.019 H30 I2K 76 I2K H31 H34 H 0 1 N N N -2.937 3.204 15.708 4.453 -2.448 0.701 H31 I2K 77 I2K H32 H35 H 0 1 N N N -1.257 5.144 17.648 7.803 -1.528 1.871 H32 I2K 78 I2K H34 H36 H 0 1 N N N -5.279 7.001 21.469 1.767 -1.470 -1.977 H34 I2K 79 I2K H39 H37 H 0 1 N N N -2.982 12.154 23.054 -0.657 -1.933 -3.919 H39 I2K 80 I2K H37 H38 H 0 1 N N N -6.073 9.202 26.184 -2.658 2.737 -1.168 H37 I2K 81 I2K H38 H39 H 0 1 N N N -6.680 6.993 26.669 -1.097 2.273 0.516 H38 I2K 82 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal I2K N1 C2 SING N N 1 I2K N1 C3 SING N N 2 I2K C4 C5 SING N N 3 I2K C4 C3 SING N N 4 I2K C4 O5 SING N N 5 I2K C5 C6 SING N N 6 I2K C5 O2 SING N N 7 I2K C6 C7 SING N N 8 I2K C6 O3 SING N N 9 I2K C7 O4 SING N N 10 I2K C8 C21 SING N N 11 I2K C8 C22 SING N N 12 I2K C8 O5 SING N N 13 I2K C8 O6 SING N N 14 I2K C10 C9 SING N N 15 I2K C10 O7 SING N N 16 I2K C10 C11 SING N N 17 I2K C13 C20 SING N N 18 I2K C13 O9 SING N N 19 I2K C13 O10 SING N N 20 I2K C15 C14 SING N N 21 I2K C15 O11 SING N N 22 I2K C15 C16 SING N N 23 I2K C17 C14 SING N N 24 I2K C17 O13 SING N N 25 I2K C17 C18 SING N N 26 I2K C20 C9 SING N N 27 I2K C20 O16 SING N N 28 I2K C21 O17 DOUB N N 29 I2K C21 O18 SING N N 30 I2K C22 C23 SING N N 31 I2K C1 C2 SING N N 32 I2K C2 O1 DOUB N N 33 I2K C3 C23 SING N N 34 I2K O6 C9 SING N N 35 I2K C11 C12 SING N N 36 I2K C11 O9 SING N N 37 I2K C12 O8 SING N N 38 I2K O10 C14 SING N N 39 I2K C16 O12 SING N N 40 I2K C18 O14 SING N N 41 I2K C18 C19 SING N N 42 I2K C19 O15 DOUB N N 43 I2K C23 O19 SING N N 44 I2K N1 H4 SING N N 45 I2K C4 H6 SING N N 46 I2K C5 H7 SING N N 47 I2K C6 H9 SING N N 48 I2K C7 H11 SING N N 49 I2K C7 H12 SING N N 50 I2K C10 H15 SING N N 51 I2K C13 H21 SING N N 52 I2K C15 H23 SING N N 53 I2K C17 H28 SING N N 54 I2K C20 H33 SING N N 55 I2K C22 H35 SING N N 56 I2K C22 H36 SING N N 57 I2K C1 H1 SING N N 58 I2K C1 H2 SING N N 59 I2K C1 H3 SING N N 60 I2K C3 H5 SING N N 61 I2K O2 H8 SING N N 62 I2K O3 H10 SING N N 63 I2K O4 H13 SING N N 64 I2K C9 H14 SING N N 65 I2K O7 H16 SING N N 66 I2K C11 H17 SING N N 67 I2K C12 H18 SING N N 68 I2K C12 H19 SING N N 69 I2K O8 H20 SING N N 70 I2K C14 H22 SING N N 71 I2K O11 H24 SING N N 72 I2K C16 H25 SING N N 73 I2K C16 H26 SING N N 74 I2K O12 H27 SING N N 75 I2K O13 H29 SING N N 76 I2K C18 H30 SING N N 77 I2K O14 H31 SING N N 78 I2K C19 H32 SING N N 79 I2K O16 H34 SING N N 80 I2K O18 H39 SING N N 81 I2K C23 H37 SING N N 82 I2K O19 H38 SING N N 83 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor I2K InChI InChI 1.06 "InChI=1S/C23H39NO19/c1-7(29)24-13-8(30)2-23(22(38)39,42-19(13)15(35)10(32)4-26)43-20-16(36)12(6-28)40-21(17(20)37)41-18(11(33)5-27)14(34)9(31)3-25/h3,8-21,26-28,30-37H,2,4-6H2,1H3,(H,24,29)(H,38,39)/t8-,9-,10+,11+,12+,13-,14+,15+,16-,17+,18+,19-,20-,21-,23-/m0/s1" I2K InChIKey InChI 1.06 OIZGSVFYNBZVIK-KYPQSLRHSA-N I2K SMILES_CANONICAL CACTVS 3.385 "CC(=O)N[C@H]1[C@@H](O)C[C@@](O[C@H]2[C@@H](O)[C@@H](CO)O[C@@H](O[C@H]([C@H](O)CO)[C@H](O)[C@@H](O)C=O)[C@@H]2O)(O[C@@H]1[C@H](O)[C@H](O)CO)C(O)=O" I2K SMILES CACTVS 3.385 "CC(=O)N[CH]1[CH](O)C[C](O[CH]2[CH](O)[CH](CO)O[CH](O[CH]([CH](O)CO)[CH](O)[CH](O)C=O)[CH]2O)(O[CH]1[CH](O)[CH](O)CO)C(O)=O" I2K SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=O)N[C@H]1[C@H](C[C@@](O[C@@H]1[C@@H]([C@@H](CO)O)O)(C(=O)O)O[C@H]2[C@H]([C@H](O[C@H]([C@@H]2O)O[C@H]([C@@H](CO)O)[C@@H]([C@H](C=O)O)O)CO)O)O" I2K SMILES "OpenEye OEToolkits" 2.0.7 "CC(=O)NC1C(CC(OC1C(C(CO)O)O)(C(=O)O)OC2C(C(OC(C2O)OC(C(CO)O)C(C(C=O)O)O)CO)O)O" # _pdbx_chem_comp_identifier.comp_id I2K _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "(2~{S},4~{S},5~{S},6~{S})-5-acetamido-2-[(2~{R},3~{S},4~{S},5~{R},6~{S})-2-(hydroxymethyl)-3,5-bis(oxidanyl)-6-[(2~{R},3~{R},4~{R},5~{R})-1,2,4,5-tetrakis(oxidanyl)-6-oxidanylidene-hexan-3-yl]oxy-oxan-4-yl]oxy-4-oxidanyl-6-[(1~{R},2~{R})-1,2,3-tris(oxidanyl)propyl]oxane-2-carboxylic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site I2K "Create component" 2022-02-08 PDBE I2K "Modify descriptor" 2022-08-22 RCSB I2K "Initial release" 2022-12-07 RCSB #