data_A1H1A # _chem_comp.id A1H1A _chem_comp.name "Haemophilus influenzae type b (Hib) DP2 oligosaccharide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C20 H40 O23 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "[(2~{R},3~{S},4~{R},5~{R})-2-(hydroxymethyl)-4,5-bis(oxidanyl)oxolan-3-yl] [(2~{R},3~{S},4~{S})-5-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3-oxidanyl-4-[oxidanyl-[(2~{R},3~{S},4~{S})-2,3,4,5-tetrakis(oxidanyl)pentoxy]phosphoryl]oxy-oxolan-2-yl]oxy-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-12-21 _chem_comp.pdbx_modified_date 2024-05-10 _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 710.465 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1H1A _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 8RDA _chem_comp.pdbx_subcomponent_list "BDR A1H0Z BDR A1H0Z" _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.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 A1H1A C42 C16 C 0 1 N N R N N N -14.307 11.910 -35.807 -11.219 1.531 0.459 C4 BDR 1 A1H1A O42 O16 O 0 1 N N N N N N -15.612 11.634 -36.366 -12.528 1.067 0.853 O4 BDR 2 A1H1A C12 C14 C 0 1 N N R N N N -16.484 11.279 -35.298 -12.316 -0.252 1.401 C1 BDR 3 A1H1A O11 O17 O 0 1 N N N N N N -16.600 9.910 -35.221 -13.534 -1.000 1.385 O1 BDR 4 A1H1A C22 C10 C 0 1 N N R N N N -15.852 11.979 -34.093 -11.273 -0.905 0.467 C2 BDR 5 A1H1A O22 O18 O 0 1 N N N N N N -15.909 13.389 -34.140 -10.366 -1.714 1.217 O2 BDR 6 A1H1A C32 C15 C 0 1 N N S N N N -14.441 11.469 -34.351 -10.534 0.296 -0.167 C3 BDR 7 A1H1A O32 O19 O 0 1 N N N N N N -13.451 12.046 -33.495 -9.146 0.266 0.172 O3 BDR 8 A1H1A C52 C17 C 0 1 N N N N N N -13.208 11.263 -36.622 -11.337 2.654 -0.573 C5 BDR 9 A1H1A O52 O20 O 0 1 N N N N N N -11.920 11.563 -36.102 -11.865 3.824 0.056 O5 BDR 10 A1H1A O1 O5 O 0 1 N N N N N N -15.497 4.889 -29.770 0.730 -0.337 0.479 O1 A1H0Z 11 A1H1A C1 C1 C 0 1 N N N N N N -15.265 6.214 -30.260 -0.352 -0.308 -0.454 C1 A1H0Z 12 A1H1A O2 O6 O 0 1 N N N N N N -14.768 7.212 -28.141 -1.824 -1.541 1.014 O2 A1H0Z 13 A1H1A C3 C3 C 0 1 N N S N N N -13.549 8.120 -30.029 -2.835 -0.152 -0.686 C3 A1H0Z 14 A1H1A O3 O7 O 0 1 N N N N N N -12.507 8.556 -29.155 -2.691 1.081 -1.394 O3 A1H0Z 15 A1H1A C4 C4 C 0 1 N N R N N N -14.462 9.316 -30.314 -4.163 -0.152 0.074 C4 A1H0Z 16 A1H1A O4 O8 O 0 1 N N N N N N -15.498 8.953 -31.229 -4.306 -1.385 0.782 O4 A1H0Z 17 A1H1A C5 C5 C 0 1 N N N N N N -13.693 10.472 -30.915 -5.317 0.004 -0.918 C5 A1H0Z 18 A1H1A C2 C2 C 0 1 N N S N N N -14.203 6.880 -29.411 -1.680 -0.308 0.306 C2 A1H0Z 19 A1H1A O5 O9 O 0 1 N N N N N N -12.969 10.064 -32.082 -6.548 0.121 -0.201 O5 A1H0Z 20 A1H1A P P1 P 0 1 N N N N N N -12.217 11.166 -32.972 -7.973 0.299 -0.929 P A1H0Z 21 A1H1A O2P O10 O 0 1 N N N N N N -11.357 11.994 -32.076 -8.006 1.710 -1.705 O2P A1H0Z 22 A1H1A O1P O11 O 0 1 N N N N N N -11.549 10.479 -34.115 -8.174 -0.801 -1.898 O1P A1H0Z 23 A1H1A C41 C11 C 0 1 N N R N N N -15.314 2.597 -31.734 3.667 -1.689 -0.994 C4 BDR 24 A1H1A O41 O12 O 0 1 N N N N N N -14.488 3.764 -31.509 2.234 -1.569 -0.857 O4 BDR 25 A1H1A C11 C8 C 0 1 N N R N N N -14.456 4.040 -30.125 2.023 -0.339 -0.130 C1 BDR 26 A1H1A C21 C9 C 0 1 N N R N N N -14.730 2.673 -29.497 3.127 -0.324 0.951 C2 BDR 27 A1H1A O21 O13 O 0 1 N N N N N N -13.682 1.743 -29.672 3.617 1.003 1.147 O2 BDR 28 A1H1A C31 C12 C 0 1 N N S N N N -15.923 2.311 -30.368 4.233 -1.233 0.369 C3 BDR 29 A1H1A O31 O14 O 0 1 N N N N N N -16.285 0.944 -30.174 5.443 -0.494 0.187 O3 BDR 30 A1H1A C51 C13 C 0 1 N N N N N N -16.310 2.823 -32.850 4.056 -3.142 -1.273 C5 BDR 31 A1H1A O51 O15 O 0 1 N N N N N N -15.663 3.190 -34.060 3.559 -3.530 -2.555 O5 BDR 32 A1H1A O6 O1 O 0 1 N N N N N N -10.620 -2.391 -27.779 14.809 2.477 -0.934 O1 A1H0Z 33 A1H1A C6 C18 C 0 1 N N N N N N -11.560 -1.802 -26.884 14.032 1.500 -0.239 C1 A1H0Z 34 A1H1A O7 O21 O 0 1 N N N N N N -12.427 -0.345 -28.592 12.205 3.034 0.147 O2 A1H0Z 35 A1H1A C8 C19 C 0 1 N N S N N N -13.831 -0.725 -26.659 11.715 0.668 0.184 C3 A1H0Z 36 A1H1A O8 O2 O 0 1 N N N N N N -14.199 -1.717 -25.700 12.054 -0.583 -0.418 O3 A1H0Z 37 A1H1A C9 C7 C 0 1 N N R N N N -15.095 -0.198 -27.344 10.227 0.951 -0.032 C4 A1H0Z 38 A1H1A O9 O22 O 0 1 N N N N N N -15.994 0.301 -26.352 9.888 2.202 0.570 O4 A1H0Z 39 A1H1A C10 C20 C 0 1 N N N N N N -15.798 -1.245 -28.185 9.397 -0.164 0.607 C5 A1H0Z 40 A1H1A C7 C6 C 0 1 N N S N N N -12.797 -1.320 -27.617 12.545 1.783 -0.455 C2 A1H0Z 41 A1H1A O10 O23 O 0 1 N N N N N N -17.092 -0.936 -28.725 8.015 0.038 0.305 O5 A1H0Z 42 A1H1A P1 P2 P 0 1 N N N N N N -17.466 0.565 -29.160 6.852 -0.950 0.819 P A1H0Z 43 A1H1A O13 O4 O 0 1 N N N N N N -17.432 1.466 -27.969 6.765 -0.887 2.425 O2P A1H0Z 44 A1H1A O12 O3 O 0 1 N N N N N N -18.755 0.542 -29.915 7.158 -2.335 0.396 O1P A1H0Z 45 A1H1A H28 H28 H 0 1 N N N N N N -14.140 12.997 -35.815 -10.660 1.873 1.330 H4 BDR 46 A1H1A H26 H26 H 0 1 N N N N N N -17.472 11.730 -35.471 -11.927 -0.183 2.417 H1 BDR 47 A1H1A H33 H33 H 0 1 N N N N N N -17.183 9.681 -34.507 -14.241 -0.610 1.917 HO1 BDR 48 A1H1A H15 H15 H 0 1 N N N N N N -16.250 11.571 -33.152 -11.767 -1.498 -0.302 H2 BDR 49 A1H1A H34 H34 H 0 1 N N N N N N -15.499 13.749 -33.362 -10.788 -2.449 1.684 HO2 BDR 50 A1H1A H27 H27 H 0 1 N N N N N N -14.425 10.371 -34.292 -10.663 0.295 -1.250 H3 BDR 51 A1H1A H29 H29 H 0 1 N N N N N N -13.269 11.630 -37.657 -10.352 2.875 -0.984 H51 BDR 52 A1H1A H30 H30 H 0 1 N N N N N N -13.351 10.172 -36.611 -12.004 2.341 -1.376 H52 BDR 53 A1H1A H35 H35 H 0 1 N N N N N N -11.794 11.102 -35.281 -11.967 4.579 -0.541 HO5 BDR 54 A1H1A H2 H2 H 0 1 N N N N N N -16.197 6.795 -30.205 -0.282 0.593 -1.063 H12 A1H0Z 55 A1H1A H1 H1 H 0 1 N N N N N N -14.924 6.165 -31.305 -0.301 -1.187 -1.097 H11 A1H0Z 56 A1H1A H16 H16 H 0 1 N N N N N N -14.109 7.631 -27.600 -1.820 -2.324 0.446 HO2 A1H0Z 57 A1H1A H4 H4 H 0 1 N N N N N N -13.101 7.813 -30.986 -2.820 -0.981 -1.393 HC3 A1H0Z 58 A1H1A H17 H17 H 0 1 N N N N N N -11.927 7.828 -28.965 -2.695 1.863 -0.826 HO3 A1H0Z 59 A1H1A H5 H5 H 0 1 N N N N N N -14.906 9.647 -29.363 -4.177 0.677 0.781 HC4 A1H0Z 60 A1H1A H18 H18 H 0 1 N N N N N N -15.996 8.227 -30.872 -4.302 -2.168 0.213 HO4 A1H0Z 61 A1H1A H6 H6 H 0 1 N N N N N N -12.982 10.857 -30.169 -5.161 0.899 -1.520 H51 A1H0Z 62 A1H1A H7 H7 H 0 1 N N N N N N -14.400 11.268 -31.192 -5.358 -0.869 -1.569 H52 A1H0Z 63 A1H1A H3 H3 H 0 1 N N N N N N -13.404 6.141 -29.250 -1.694 0.521 1.013 HC2 A1H0Z 64 A1H1A H19 H19 H 0 1 N N N N N N -10.458 11.962 -32.381 -7.880 2.478 -1.131 HOP2 A1H0Z 65 A1H1A H20 H20 H 0 1 N N N N N N -14.672 1.747 -32.009 4.028 -1.039 -1.791 H4 BDR 66 A1H1A H12 H12 H 0 1 N N N N N N -13.475 4.419 -29.801 2.129 0.518 -0.795 H1 BDR 67 A1H1A H14 H14 H 0 1 N N N N N N -15.030 2.780 -28.444 2.750 -0.734 1.888 H2 BDR 68 A1H1A H21 H21 H 0 1 N N N N N N -12.947 1.986 -29.121 2.947 1.629 1.455 HO2 BDR 69 A1H1A H22 H22 H 0 1 N N N N N N -16.765 2.991 -30.171 4.405 -2.092 1.018 H3 BDR 70 A1H1A H23 H23 H 0 1 N N N N N N -17.000 3.628 -32.556 5.142 -3.237 -1.259 H51 BDR 71 A1H1A H24 H24 H 0 1 N N N N N N -16.878 1.895 -33.016 3.626 -3.787 -0.506 H52 BDR 72 A1H1A H25 H25 H 0 1 N N N N N N -16.313 3.324 -34.739 3.769 -4.442 -2.798 HO5 BDR 73 A1H1A H8 H8 H 0 1 N N N N N N -9.858 -2.682 -27.292 15.765 2.359 -0.841 HO1 A1H0Z 74 A1H1A H32 H32 H 0 1 N N N N N N -11.087 -0.946 -26.380 14.272 0.507 -0.619 H12 A1H0Z 75 A1H1A H31 H31 H 0 1 N N N N N N -11.857 -2.550 -26.134 14.260 1.545 0.826 H11 A1H0Z 76 A1H1A H36 H36 H 0 1 N N N N N N -13.203 -0.044 -29.050 12.367 3.068 1.100 HO2 A1H0Z 77 A1H1A H37 H37 H 0 1 N N N N N N -13.357 0.119 -26.137 11.925 0.625 1.253 HC3 A1H0Z 78 A1H1A H10 H10 H 0 1 N N N N N N -14.841 -1.356 -25.101 11.893 -0.617 -1.371 HO3 A1H0Z 79 A1H1A H11 H11 H 0 1 N N N N N N -14.798 0.627 -28.008 10.017 0.993 -1.101 HC4 A1H0Z 80 A1H1A H38 H38 H 0 1 N N N N N N -15.553 0.957 -25.825 10.049 2.236 1.523 HO4 A1H0Z 81 A1H1A H39 H39 H 0 1 N N N N N N -15.914 -2.141 -27.558 9.718 -1.128 0.211 H51 A1H0Z 82 A1H1A H40 H40 H 0 1 N N N N N N -15.138 -1.475 -29.035 9.540 -0.150 1.687 H52 A1H0Z 83 A1H1A H9 H9 H 0 1 N N N N N N -13.256 -2.183 -28.120 12.334 1.826 -1.524 HC2 A1H0Z 84 A1H1A H13 H13 H 0 1 N N N N N N -18.272 1.901 -27.876 6.567 -0.007 2.774 HOP2 A1H0Z 85 # 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 A1H1A C52 O52 SING N N 1 A1H1A C52 C42 SING N N 2 A1H1A O42 C42 SING N N 3 A1H1A O42 C12 SING N N 4 A1H1A C42 C32 SING N N 5 A1H1A C12 O11 SING N N 6 A1H1A C12 C22 SING N N 7 A1H1A C32 C22 SING N N 8 A1H1A C32 O32 SING N N 9 A1H1A O22 C22 SING N N 10 A1H1A O1P P DOUB N N 11 A1H1A O51 C51 SING N N 12 A1H1A O32 P SING N N 13 A1H1A P O5 SING N N 14 A1H1A P O2P SING N N 15 A1H1A C51 C41 SING N N 16 A1H1A O5 C5 SING N N 17 A1H1A C41 O41 SING N N 18 A1H1A C41 C31 SING N N 19 A1H1A O41 C11 SING N N 20 A1H1A O4 C4 SING N N 21 A1H1A C5 C4 SING N N 22 A1H1A C31 O31 SING N N 23 A1H1A C31 C21 SING N N 24 A1H1A C4 C3 SING N N 25 A1H1A C1 O1 SING N N 26 A1H1A C1 C2 SING N N 27 A1H1A O31 P1 SING N N 28 A1H1A C11 O1 SING N N 29 A1H1A C11 C21 SING N N 30 A1H1A C3 C2 SING N N 31 A1H1A C3 O3 SING N N 32 A1H1A O12 P1 DOUB N N 33 A1H1A O21 C21 SING N N 34 A1H1A C2 O2 SING N N 35 A1H1A P1 O10 SING N N 36 A1H1A P1 O13 SING N N 37 A1H1A O10 C10 SING N N 38 A1H1A O7 C7 SING N N 39 A1H1A C10 C9 SING N N 40 A1H1A O6 C6 SING N N 41 A1H1A C7 C6 SING N N 42 A1H1A C7 C8 SING N N 43 A1H1A C9 C8 SING N N 44 A1H1A C9 O9 SING N N 45 A1H1A C8 O8 SING N N 46 A1H1A C1 H1 SING N N 47 A1H1A C1 H2 SING N N 48 A1H1A C2 H3 SING N N 49 A1H1A C3 H4 SING N N 50 A1H1A C4 H5 SING N N 51 A1H1A C5 H6 SING N N 52 A1H1A C5 H7 SING N N 53 A1H1A O6 H8 SING N N 54 A1H1A C7 H9 SING N N 55 A1H1A O8 H10 SING N N 56 A1H1A C9 H11 SING N N 57 A1H1A C11 H12 SING N N 58 A1H1A O13 H13 SING N N 59 A1H1A C21 H14 SING N N 60 A1H1A C22 H15 SING N N 61 A1H1A O2 H16 SING N N 62 A1H1A O3 H17 SING N N 63 A1H1A O4 H18 SING N N 64 A1H1A O2P H19 SING N N 65 A1H1A C41 H20 SING N N 66 A1H1A O21 H21 SING N N 67 A1H1A C31 H22 SING N N 68 A1H1A C51 H23 SING N N 69 A1H1A C51 H24 SING N N 70 A1H1A O51 H25 SING N N 71 A1H1A C12 H26 SING N N 72 A1H1A C32 H27 SING N N 73 A1H1A C42 H28 SING N N 74 A1H1A C52 H29 SING N N 75 A1H1A C52 H30 SING N N 76 A1H1A C6 H31 SING N N 77 A1H1A C6 H32 SING N N 78 A1H1A O11 H33 SING N N 79 A1H1A O22 H34 SING N N 80 A1H1A O52 H35 SING N N 81 A1H1A O7 H36 SING N N 82 A1H1A C8 H37 SING N N 83 A1H1A O9 H38 SING N N 84 A1H1A C10 H39 SING N N 85 A1H1A C10 H40 SING N N 86 # 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 A1H1A InChI InChI 1.06 "InChI=1S/C20H40O23P2/c21-1-7(24)13(28)9(26)5-38-45(35,36)43-18-12(3-23)41-20(16(18)31)37-4-8(25)14(29)10(27)6-39-44(33,34)42-17-11(2-22)40-19(32)15(17)30/h7-32H,1-6H2,(H,33,34)(H,35,36)/t7-,8-,9+,10+,11+,12+,13-,14-,15+,16+,17+,18+,19+,20+/m0/s1" A1H1A InChIKey InChI 1.06 HIDLWJXKOHQXBH-VBFGRUPISA-N A1H1A SMILES_CANONICAL CACTVS 3.385 "OC[C@H](O)[C@H](O)[C@H](O)CO[P](O)(=O)O[C@H]1[C@@H](O)[C@H](OC[C@H](O)[C@H](O)[C@H](O)CO[P](O)(=O)O[C@H]2[C@@H](O)[C@H](O)O[C@@H]2CO)O[C@@H]1CO" A1H1A SMILES CACTVS 3.385 "OC[CH](O)[CH](O)[CH](O)CO[P](O)(=O)O[CH]1[CH](O)[CH](OC[CH](O)[CH](O)[CH](O)CO[P](O)(=O)O[CH]2[CH](O)[CH](O)O[CH]2CO)O[CH]1CO" A1H1A SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C([C@@H]1[C@H]([C@H]([C@@H](O1)O)O)OP(=O)(O)OC[C@H]([C@H]([C@H](CO[C@H]2[C@@H]([C@@H]([C@H](O2)CO)OP(=O)(O)OC[C@H]([C@H]([C@H](CO)O)O)O)O)O)O)O)O" A1H1A SMILES "OpenEye OEToolkits" 2.0.7 "C(C1C(C(C(O1)O)O)OP(=O)(O)OCC(C(C(COC2C(C(C(O2)CO)OP(=O)(O)OCC(C(C(CO)O)O)O)O)O)O)O)O" # _pdbx_chem_comp_identifier.comp_id A1H1A _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~{R},3~{S},4~{R},5~{R})-2-(hydroxymethyl)-4,5-bis(oxidanyl)oxolan-3-yl] [(2~{R},3~{S},4~{S})-5-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3-oxidanyl-4-[oxidanyl-[(2~{R},3~{S},4~{S})-2,3,4,5-tetrakis(oxidanyl)pentoxy]phosphoryl]oxy-oxolan-2-yl]oxy-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1H1A "Create component" 2023-12-21 PDBE A1H1A "Initial release" 2024-05-15 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1H1A _pdbx_chem_comp_synonyms.name "[(2~{R},3~{S},4~{R},5~{R})-2-(hydroxymethyl)-4,5-bis(oxidanyl)oxolan-3-yl] [(2~{R},3~{S},4~{S})-5-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3-oxidanyl-4-[oxidanyl-[(2~{R},3~{S},4~{S})-2,3,4,5-tetrakis(oxidanyl)pentoxy]phosphoryl]oxy-oxolan-2-yl]oxy-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? #