data_MJL # _chem_comp.id MJL _chem_comp.name "(2~{S},3~{S},4~{R},5~{R},6~{R})-4,5-diacetamido-6-[[[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3-oxidanyl-oxane-2-carboxylic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H28 N4 O18 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms UDP-2,3-diacetamido-2,3-dideoxy-alpha-D-glucuronate _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-05-26 _chem_comp.pdbx_modified_date 2023-09-08 _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 662.389 _chem_comp.one_letter_code ? _chem_comp.three_letter_code MJL _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 8SY9 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # 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 MJL N1 N1 N 0 1 N N N -16.512 74.299 0.909 6.133 1.351 -0.632 N1 MJL 1 MJL N3 N2 N 0 1 N N N -18.694 74.419 -0.092 6.860 2.600 1.211 N3 MJL 2 MJL C4 C1 C 0 1 N N N -18.142 75.135 -1.073 7.131 3.652 0.412 C4 MJL 3 MJL C5 C2 C 0 1 N N N -16.865 75.435 -1.063 6.885 3.551 -0.978 C5 MJL 4 MJL C6 C3 C 0 1 N N N -16.055 75.058 -0.107 6.389 2.398 -1.475 C6 MJL 5 MJL C2 C4 C 0 1 N N N -17.910 73.989 0.903 6.366 1.462 0.688 C2 MJL 6 MJL O2 O1 O 0 1 N N N -18.442 73.325 1.803 6.126 0.521 1.420 O2 MJL 7 MJL O4 O2 O 0 1 N N N -18.910 75.521 -1.944 7.578 4.682 0.884 O4 MJL 8 MJL PA P1 P 0 1 N N N -12.637 77.984 2.029 0.774 -2.321 1.121 PA MJL 9 MJL PB P2 P 0 1 N N N -10.047 78.285 2.843 -2.161 -2.032 0.820 PB MJL 10 MJL "O'P" O3 O 0 1 N N N -10.527 78.742 8.909 -4.139 3.150 3.255 "O'P" MJL 11 MJL "O'Q" O4 O 0 1 N N N -10.044 80.876 8.548 -5.305 1.341 3.754 "O'Q" MJL 12 MJL "C1'" C5 C 0 1 N N R -9.201 80.084 4.624 -4.477 -0.763 0.412 "C1'" MJL 13 MJL O1A O5 O 0 1 N N N -12.253 77.402 0.681 0.695 -3.799 1.143 O1A MJL 14 MJL O1B O6 O 0 1 N N N -9.168 78.869 1.827 -2.392 -2.157 2.277 O1B MJL 15 MJL C1C C6 C 0 1 N N R -15.695 73.856 2.019 5.595 0.099 -1.172 C1C MJL 16 MJL "C2'" C7 C 0 1 N N R -7.684 80.130 4.845 -5.104 -0.035 -0.780 "C2'" MJL 17 MJL "N2'" N3 N 0 1 N N N -6.970 80.153 3.575 -4.752 -0.731 -2.020 "N2'" MJL 18 MJL O2A O7 O 0 1 N N N -13.920 78.746 1.910 1.018 -1.775 2.616 O2A MJL 19 MJL O2B O8 O 0 1 N N N -10.065 76.790 2.855 -2.566 -3.409 0.092 O2B MJL 20 MJL C2C C8 C 0 1 N N R -14.551 72.950 1.671 6.581 -1.063 -0.919 C2C MJL 21 MJL O2C O9 O 0 1 N N N -14.888 71.568 1.574 7.363 -1.318 -2.088 O2C MJL 22 MJL "C3'" C9 C 0 1 N N R -7.282 78.951 5.699 -4.572 1.401 -0.830 "C3'" MJL 23 MJL "N3'" N4 N 0 1 N N N -5.871 78.945 5.936 -5.225 2.128 -1.922 "N3'" MJL 24 MJL O3A O10 O 0 1 N N N -11.496 78.890 2.583 -0.605 -1.718 0.549 O3A MJL 25 MJL O3B O11 O 0 1 N N N -9.600 78.760 4.281 -3.060 -0.831 0.235 O3B MJL 26 MJL C3C C10 C 0 1 N N S -13.553 73.198 2.810 5.667 -2.269 -0.606 C3C MJL 27 MJL O3C O12 O 0 1 N N N -13.715 72.306 3.901 5.858 -3.306 -1.570 O3C MJL 28 MJL "C4'" C11 C 0 1 N N S -7.990 79.080 7.009 -4.878 2.093 0.502 "C4'" MJL 29 MJL "O4'" O13 O 0 1 N N N -7.720 77.862 7.714 -4.323 3.410 0.494 "O4'" MJL 30 MJL C4C C12 C 0 1 N N R -13.830 74.639 3.249 4.238 -1.692 -0.705 C4C MJL 31 MJL O4C O14 O 0 1 N N N -15.097 75.027 2.635 4.393 -0.277 -0.465 O4C MJL 32 MJL "C5'" C13 C 0 1 N N S -9.505 79.304 6.840 -4.259 1.283 1.644 "C5'" MJL 33 MJL "O5'" O15 O 0 1 N N N -9.806 80.353 5.883 -4.773 -0.050 1.614 "O5'" MJL 34 MJL C5C C14 C 0 1 N N N -12.701 75.472 2.709 3.335 -2.319 0.359 C5C MJL 35 MJL O5C O16 O 0 1 N N N -12.806 76.834 3.105 1.994 -1.862 0.176 O5C MJL 36 MJL "C6'" C15 C 0 1 N N N -10.085 79.662 8.180 -4.606 1.926 2.962 "C6'" MJL 37 MJL "C7'" C16 C 0 1 N N N -5.888 80.881 3.318 -5.490 -1.779 -2.438 "C7'" MJL 38 MJL "O7'" O17 O 0 1 N N N -5.388 81.597 4.159 -6.445 -2.146 -1.787 "O7'" MJL 39 MJL "C8'" C17 C 0 1 N N N -5.282 80.803 1.909 -5.127 -2.495 -3.713 "C8'" MJL 40 MJL O43 O18 O 0 1 N N N -5.371 77.193 4.596 -3.518 3.534 -2.096 O43 MJL 41 MJL C41 C18 C 0 1 N N N -5.003 78.079 5.334 -4.610 3.184 -2.489 C41 MJL 42 MJL C42 C19 C 0 1 N N N -3.523 78.261 5.571 -5.281 3.932 -3.612 C42 MJL 43 MJL H1 H1 H 0 1 N N N -19.672 74.209 -0.100 7.022 2.663 2.165 H1 MJL 44 MJL H2 H2 H 0 1 N N N -16.465 76.018 -1.879 7.096 4.383 -1.633 H2 MJL 45 MJL H3 H3 H 0 1 N N N -15.017 75.356 -0.132 6.196 2.302 -2.534 H3 MJL 46 MJL H4 H4 H 0 1 N N N -10.809 79.104 9.741 -4.388 3.521 4.113 H4 MJL 47 MJL H5 H5 H 0 1 N N N -9.499 80.816 3.858 -4.884 -1.771 0.477 H5 MJL 48 MJL H6 H6 H 0 1 N N N -16.332 73.346 2.757 5.392 0.203 -2.238 H6 MJL 49 MJL H7 H7 H 0 1 N N N -7.451 81.051 5.400 -6.188 -0.018 -0.666 H7 MJL 50 MJL H8 H8 H 0 1 N N N -7.322 79.575 2.838 -3.988 -0.437 -2.540 H8 MJL 51 MJL H9 H9 H 0 1 N N N -14.230 78.708 1.013 1.080 -0.812 2.678 H9 MJL 52 MJL H10 H10 H 0 1 N N N -9.484 76.460 2.179 -2.440 -3.399 -0.866 H10 MJL 53 MJL H11 H11 H 0 1 N N N -14.098 73.293 0.729 7.225 -0.840 -0.069 H11 MJL 54 MJL H12 H12 H 0 1 N N N -14.112 71.067 1.352 8.000 -2.039 -1.985 H12 MJL 55 MJL H13 H13 H 0 1 N N N -7.592 78.019 5.203 -3.495 1.385 -0.995 H13 MJL 56 MJL H14 H14 H 0 1 N N N -5.499 79.614 6.580 -6.099 1.848 -2.236 H14 MJL 57 MJL H15 H15 H 0 1 N N N -12.531 73.136 2.409 5.859 -2.642 0.400 H15 MJL 58 MJL H16 H16 H 0 1 N N N -13.073 72.506 4.572 6.756 -3.662 -1.592 H16 MJL 59 MJL H17 H17 H 0 1 N N N -7.571 79.934 7.562 -5.958 2.154 0.641 H17 MJL 60 MJL H18 H18 H 0 1 N N N -8.148 77.885 8.562 -4.479 3.908 1.308 H18 MJL 61 MJL H19 H19 H 0 1 N N N -13.876 74.705 4.346 3.827 -1.866 -1.700 H19 MJL 62 MJL H20 H20 H 0 1 N N N -9.957 78.360 6.501 -3.176 1.258 1.526 H20 MJL 63 MJL H21 H21 H 0 1 N N N -12.715 75.420 1.610 3.364 -3.405 0.266 H21 MJL 64 MJL H22 H22 H 0 1 N N N -11.750 75.066 3.083 3.686 -2.030 1.349 H22 MJL 65 MJL H23 H23 H 0 1 N N N -4.404 81.462 1.850 -4.247 -2.026 -4.155 H23 MJL 66 MJL H24 H24 H 0 1 N N N -4.978 79.767 1.698 -4.911 -3.540 -3.494 H24 MJL 67 MJL H25 H25 H 0 1 N N N -6.031 81.123 1.170 -5.961 -2.435 -4.413 H25 MJL 68 MJL H26 H26 H 0 1 N N N -2.964 77.508 4.997 -4.638 4.749 -3.941 H26 MJL 69 MJL H27 H27 H 0 1 N N N -3.221 79.268 5.247 -5.460 3.253 -4.446 H27 MJL 70 MJL H28 H28 H 0 1 N N N -3.306 78.140 6.643 -6.232 4.336 -3.263 H28 MJL 71 # 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 MJL O4 C4 DOUB N N 1 MJL C4 C5 SING N N 2 MJL C4 N3 SING N N 3 MJL C5 C6 DOUB N N 4 MJL C6 N1 SING N N 5 MJL N3 C2 SING N N 6 MJL O1A PA DOUB N N 7 MJL C2 N1 SING N N 8 MJL C2 O2 DOUB N N 9 MJL N1 C1C SING N N 10 MJL O2C C2C SING N N 11 MJL C2C C1C SING N N 12 MJL C2C C3C SING N N 13 MJL O1B PB DOUB N N 14 MJL "C8'" "C7'" SING N N 15 MJL O2A PA SING N N 16 MJL C1C O4C SING N N 17 MJL PA O3A SING N N 18 MJL PA O5C SING N N 19 MJL O3A PB SING N N 20 MJL O4C C4C SING N N 21 MJL C5C O5C SING N N 22 MJL C5C C4C SING N N 23 MJL C3C C4C SING N N 24 MJL C3C O3C SING N N 25 MJL PB O2B SING N N 26 MJL PB O3B SING N N 27 MJL "C7'" "N2'" SING N N 28 MJL "C7'" "O7'" DOUB N N 29 MJL "N2'" "C2'" SING N N 30 MJL O3B "C1'" SING N N 31 MJL O43 C41 DOUB N N 32 MJL "C1'" "C2'" SING N N 33 MJL "C1'" "O5'" SING N N 34 MJL "C2'" "C3'" SING N N 35 MJL C41 C42 SING N N 36 MJL C41 "N3'" SING N N 37 MJL "C3'" "N3'" SING N N 38 MJL "C3'" "C4'" SING N N 39 MJL "O5'" "C5'" SING N N 40 MJL "C5'" "C4'" SING N N 41 MJL "C5'" "C6'" SING N N 42 MJL "C4'" "O4'" SING N N 43 MJL "C6'" "O'Q" DOUB N N 44 MJL "C6'" "O'P" SING N N 45 MJL N3 H1 SING N N 46 MJL C5 H2 SING N N 47 MJL C6 H3 SING N N 48 MJL "O'P" H4 SING N N 49 MJL "C1'" H5 SING N N 50 MJL C1C H6 SING N N 51 MJL "C2'" H7 SING N N 52 MJL "N2'" H8 SING N N 53 MJL O2A H9 SING N N 54 MJL O2B H10 SING N N 55 MJL C2C H11 SING N N 56 MJL O2C H12 SING N N 57 MJL "C3'" H13 SING N N 58 MJL "N3'" H14 SING N N 59 MJL C3C H15 SING N N 60 MJL O3C H16 SING N N 61 MJL "C4'" H17 SING N N 62 MJL "O4'" H18 SING N N 63 MJL C4C H19 SING N N 64 MJL "C5'" H20 SING N N 65 MJL C5C H21 SING N N 66 MJL C5C H22 SING N N 67 MJL "C8'" H23 SING N N 68 MJL "C8'" H24 SING N N 69 MJL "C8'" H25 SING N N 70 MJL C42 H26 SING N N 71 MJL C42 H27 SING N N 72 MJL C42 H28 SING N N 73 # 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 MJL SMILES ACDLabs 12.01 "O=C1C=CN(C(=O)N1)C1OC(COP(=O)(O)OP(=O)(O)OC2OC(C(O)C(NC(C)=O)C2NC(C)=O)C(=O)O)C(O)C1O" MJL InChI InChI 1.06 "InChI=1S/C19H28N4O18P2/c1-6(24)20-10-11(21-7(2)25)18(39-15(13(10)28)17(30)31)40-43(35,36)41-42(33,34)37-5-8-12(27)14(29)16(38-8)23-4-3-9(26)22-19(23)32/h3-4,8,10-16,18,27-29H,5H2,1-2H3,(H,20,24)(H,21,25)(H,30,31)(H,33,34)(H,35,36)(H,22,26,32)/t8-,10-,11-,12-,13+,14-,15+,16-,18-/m1/s1" MJL InChIKey InChI 1.06 GZLIMKLKXDFTJR-LTMKHLKMSA-N MJL SMILES_CANONICAL CACTVS 3.385 "CC(=O)N[C@H]1[C@H](O)[C@H](O[C@H](O[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O)[C@@H]1NC(C)=O)C(O)=O" MJL SMILES CACTVS 3.385 "CC(=O)N[CH]1[CH](O)[CH](O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)[CH]1NC(C)=O)C(O)=O" MJL SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=O)N[C@@H]1[C@H]([C@H](O[C@@H]([C@H]1O)C(=O)O)OP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)NC(=O)C" MJL SMILES "OpenEye OEToolkits" 2.0.7 "CC(=O)NC1C(C(OC(C1O)C(=O)O)OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O)NC(=O)C" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier MJL "SYSTEMATIC NAME" ACDLabs 12.01 "(2S,3S,4R,5R,6R)-4,5-diacetamido-6-{[(R)-{[(R)-{[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}-3-hydroxyoxane-2-carboxylic acid (non-preferred name)" MJL "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S},3~{S},4~{R},5~{R},6~{R})-4,5-diacetamido-6-[[[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3-oxidanyl-oxane-2-carboxylic acid" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id MJL _pdbx_chem_comp_synonyms.name UDP-2,3-diacetamido-2,3-dideoxy-alpha-D-glucuronate _pdbx_chem_comp_synonyms.provenance PUBCHEM _pdbx_chem_comp_synonyms.type ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site MJL "Create component" 2023-05-26 RCSB MJL "Initial release" 2023-09-13 RCSB #