data_VJ4 # _chem_comp.id VJ4 _chem_comp.name "2-deoxy-2-{[(1S,3R)-1-hydroxy-3-(pentanoyloxy)undecyl]amino}-4-O-phosphono-alpha-D-glucopyranose" _chem_comp.type D-saccharide _chem_comp.pdbx_type ATOMS _chem_comp.formula "C22 H44 N O11 P" _chem_comp.mon_nstd_parent_comp_id GCS _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-08-13 _chem_comp.pdbx_modified_date 2020-08-21 _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 529.559 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VJ4 _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 6XLP _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 VJ4 N2 N1 N 0 1 N N N -9.852 27.779 73.893 1.391 1.657 0.042 N2 VJ4 1 VJ4 P1 P1 P 0 1 N N N -9.353 22.679 70.744 7.344 0.501 0.831 P1 VJ4 2 VJ4 O6 O1 O 0 1 N N N -9.253 27.082 67.646 5.605 -1.991 -3.163 O6 VJ4 3 VJ4 O10 O2 O 0 1 N N N -13.046 25.490 74.867 -3.542 -0.994 1.461 O10 VJ4 4 VJ4 O11 O3 O 0 1 N N N -12.422 27.326 76.313 -2.286 -0.415 -0.262 O11 VJ4 5 VJ4 C13 C1 C 0 1 N N S -10.522 28.648 74.811 0.145 1.045 0.522 C13 VJ4 6 VJ4 O4 O4 O 0 1 N N N -8.838 24.149 70.811 6.192 0.904 -0.220 O4 VJ4 7 VJ4 C14 C2 C 0 1 N N N -10.294 28.498 76.301 -1.045 1.680 -0.200 C14 VJ4 8 VJ4 O5 O5 O 0 1 N N N -9.914 27.616 70.193 3.384 -0.955 -1.663 O5 VJ4 9 VJ4 C15 C3 C 0 1 N N R -11.600 28.242 77.051 -2.332 0.958 0.207 C15 VJ4 10 VJ4 O9 O6 O 0 1 N N N -10.051 22.572 69.408 7.612 -0.951 0.737 O9 VJ4 11 VJ4 C16 C4 C 0 1 N N N -12.354 29.550 77.266 -3.534 1.670 -0.416 C16 VJ4 12 VJ4 O7 O7 O 0 1 N N N -10.281 22.200 71.837 8.689 1.318 0.491 O7 VJ4 13 VJ4 C17 C5 C 0 1 N N N -11.637 30.448 78.268 -4.826 1.025 0.090 C17 VJ4 14 VJ4 O8 O8 O 0 1 N N N -8.113 21.815 70.731 6.860 0.863 2.323 O8 VJ4 15 VJ4 C18 C6 C 0 1 N N N -12.465 31.693 78.563 -6.029 1.737 -0.533 C18 VJ4 16 VJ4 C7 C7 C 0 1 N N N -11.913 32.440 79.770 -7.321 1.093 -0.027 C7 VJ4 17 VJ4 C8 C8 C 0 1 N N N -12.846 33.572 80.184 -8.524 1.804 -0.650 C8 VJ4 18 VJ4 C9 C9 C 0 1 N N N -12.685 33.889 81.667 -9.816 1.160 -0.144 C9 VJ4 19 VJ4 C10 C10 C 0 1 N N N -13.676 34.957 82.114 -11.019 1.871 -0.767 C10 VJ4 20 VJ4 C11 C11 C 0 1 N N N -13.713 35.058 83.633 -12.311 1.227 -0.261 C11 VJ4 21 VJ4 O2 O9 O 0 1 N N N -11.684 28.573 74.354 0.020 1.261 1.929 O2 VJ4 22 VJ4 C12 C12 C 0 1 N N N -13.178 26.289 75.820 -2.945 -1.330 0.466 C12 VJ4 23 VJ4 C21 C13 C 0 1 N N N -14.548 26.491 76.421 -2.942 -2.776 0.041 C21 VJ4 24 VJ4 C31 C14 C 0 1 N N N -14.486 26.191 77.914 -3.761 -3.602 1.035 C31 VJ4 25 VJ4 C41 C15 C 0 1 N N N -15.172 27.287 78.718 -3.758 -5.069 0.603 C41 VJ4 26 VJ4 C51 C16 C 0 1 N N N -14.793 27.182 80.190 -4.578 -5.895 1.597 C51 VJ4 27 VJ4 O3 O10 O 0 1 N N N -9.793 24.943 73.396 3.974 1.879 1.301 O3 VJ4 28 VJ4 C1 C17 C 0 1 N N R -9.739 28.183 71.494 2.321 -0.015 -1.489 C1 VJ4 29 VJ4 C2 C18 C 0 1 N N R -10.124 27.195 72.590 2.447 0.648 -0.115 C2 VJ4 30 VJ4 C3 C19 C 0 1 N N R -9.357 25.893 72.416 3.819 1.321 -0.005 C3 VJ4 31 VJ4 C4 C20 C 0 1 N N S -9.586 25.357 71.004 4.910 0.273 -0.248 C4 VJ4 32 VJ4 C5 C21 C 0 1 N N R -9.180 26.409 69.970 4.689 -0.375 -1.617 C5 VJ4 33 VJ4 C6 C22 C 0 1 N N N -9.415 25.955 68.525 5.739 -1.465 -1.841 C6 VJ4 34 VJ4 HN21 H1 H 0 0 N N N -9.679 26.970 74.455 1.690 2.400 0.656 HN21 VJ4 35 VJ4 HO6 H3 H 0 1 N N N -9.397 26.807 66.748 6.241 -2.688 -3.375 HO6 VJ4 36 VJ4 H37 H4 H 0 1 N N N -10.144 29.655 74.580 0.165 -0.025 0.319 H37 VJ4 37 VJ4 H38 H5 H 0 1 N N N -9.612 27.652 76.474 -1.117 2.732 0.073 H38 VJ4 38 VJ4 H6 H6 H 0 1 N N N -9.837 29.422 76.686 -0.905 1.593 -1.278 H6 VJ4 39 VJ4 H7 H7 H 0 1 N N N -11.358 27.813 78.035 -2.426 0.968 1.293 H7 VJ4 40 VJ4 H8 H8 H 0 1 N N N -12.434 30.079 76.305 -3.519 2.723 -0.135 H8 VJ4 41 VJ4 H9 H9 H 0 1 N N N -13.362 29.324 77.645 -3.486 1.582 -1.502 H9 VJ4 42 VJ4 H10 H10 H 0 1 N N N -11.109 21.932 71.455 9.427 1.125 1.085 H10 VJ4 43 VJ4 H11 H11 H 0 1 N N N -11.477 29.891 79.203 -4.842 -0.028 -0.191 H11 VJ4 44 VJ4 H12 H12 H 0 1 N N N -10.665 30.751 77.851 -4.875 1.113 1.175 H12 VJ4 45 VJ4 H13 H13 H 0 1 N N N -8.034 21.387 69.887 6.666 1.800 2.457 H13 VJ4 46 VJ4 H14 H14 H 0 1 N N N -12.441 32.357 77.687 -6.014 2.790 -0.252 H14 VJ4 47 VJ4 H15 H15 H 0 1 N N N -13.504 31.394 78.768 -5.981 1.650 -1.618 H15 VJ4 48 VJ4 H16 H16 H 0 1 N N N -11.805 31.737 80.609 -7.337 0.040 -0.308 H16 VJ4 49 VJ4 H17 H17 H 0 1 N N N -10.929 32.860 79.514 -7.370 1.180 1.059 H17 VJ4 50 VJ4 H18 H18 H 0 1 N N N -12.608 34.470 79.595 -8.509 2.857 -0.369 H18 VJ4 51 VJ4 H19 H19 H 0 1 N N N -13.886 33.272 79.990 -8.476 1.717 -1.735 H19 VJ4 52 VJ4 H20 H20 H 0 1 N N N -12.858 32.973 82.250 -9.831 0.107 -0.425 H20 VJ4 53 VJ4 H21 H21 H 0 1 N N N -11.662 34.251 81.847 -9.865 1.247 0.942 H21 VJ4 54 VJ4 H22 H22 H 0 1 N N N -13.373 35.928 81.695 -11.004 2.924 -0.486 H22 VJ4 55 VJ4 H23 H23 H 0 1 N N N -14.679 34.695 81.745 -10.970 1.784 -1.852 H23 VJ4 56 VJ4 H24 H24 H 0 1 N N N -14.434 35.833 83.932 -12.326 0.174 -0.542 H24 VJ4 57 VJ4 H25 H25 H 0 1 N N N -14.019 34.090 84.057 -12.360 1.314 0.825 H25 VJ4 58 VJ4 H26 H26 H 0 1 N N N -12.713 35.323 84.007 -13.168 1.734 -0.705 H26 VJ4 59 VJ4 H27 H27 H 0 1 N N N -12.265 29.114 74.875 -0.004 2.194 2.183 H27 VJ4 60 VJ4 H28 H28 H 0 1 N N N -14.868 27.532 76.267 -3.381 -2.864 -0.953 H28 VJ4 61 VJ4 H29 H29 H 0 1 N N N -15.266 25.812 75.938 -1.917 -3.146 0.019 H29 VJ4 62 VJ4 H30 H30 H 0 1 N N N -14.989 25.232 78.110 -3.322 -3.514 2.028 H30 VJ4 63 VJ4 H31 H31 H 0 1 N N N -13.433 26.123 78.224 -4.786 -3.231 1.056 H31 VJ4 64 VJ4 H32 H32 H 0 1 N N N -14.860 28.269 78.332 -4.197 -5.157 -0.391 H32 VJ4 65 VJ4 H33 H33 H 0 1 N N N -16.262 27.183 78.616 -2.733 -5.439 0.581 H33 VJ4 66 VJ4 H34 H34 H 0 1 N N N -15.296 27.980 80.756 -5.603 -5.525 1.619 H34 VJ4 67 VJ4 H35 H35 H 0 1 N N N -15.106 26.202 80.580 -4.576 -6.941 1.290 H35 VJ4 68 VJ4 H36 H36 H 0 1 N N N -13.703 27.288 80.296 -4.139 -5.807 2.591 H36 VJ4 69 VJ4 HO3 H37 H 0 1 N N N -9.643 25.293 74.266 4.823 2.322 1.441 HO3 VJ4 70 VJ4 H1 H38 H 0 1 N N N -8.654 28.323 71.614 2.379 0.747 -2.267 H1 VJ4 71 VJ4 H2 H40 H 0 1 N N N -11.199 26.981 72.503 2.348 -0.108 0.664 H2 VJ4 72 VJ4 H3 H41 H 0 1 N N N -8.284 26.097 72.544 3.898 2.111 -0.752 H3 VJ4 73 VJ4 H4 H42 H 0 1 N N N -10.659 25.149 70.883 4.862 -0.489 0.530 H4 VJ4 74 VJ4 H5 H43 H 0 1 N N N -8.105 26.609 70.092 4.778 0.382 -2.396 H5 VJ4 75 VJ4 H61 H44 H 0 1 N N N -10.435 25.554 68.426 5.594 -2.265 -1.115 H61 VJ4 76 VJ4 H62 H45 H 0 1 N N N -8.687 25.174 68.261 6.735 -1.040 -1.718 H62 VJ4 77 VJ4 O1 O11 O 0 1 N Y N -10.245 29.401 71.112 1.066 -0.692 -1.578 O1 VJ4 78 VJ4 H39 H39 H 0 1 N N N -10.234 29.995 71.853 0.918 -1.137 -2.424 H39 VJ4 79 # # 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 VJ4 O6 C6 SING N N 1 VJ4 C6 C5 SING N N 2 VJ4 O9 P1 DOUB N N 3 VJ4 C5 O5 SING N N 4 VJ4 C5 C4 SING N N 5 VJ4 O5 C1 SING N N 6 VJ4 O8 P1 SING N N 7 VJ4 P1 O4 SING N N 8 VJ4 P1 O7 SING N N 9 VJ4 O4 C4 SING N N 10 VJ4 C4 C3 SING N N 11 VJ4 C1 C2 SING N N 12 VJ4 C3 C2 SING N N 13 VJ4 C3 O3 SING N N 14 VJ4 C2 N2 SING N N 15 VJ4 N2 C13 SING N N 16 VJ4 O2 C13 SING N N 17 VJ4 C13 C14 SING N N 18 VJ4 O10 C12 DOUB N N 19 VJ4 C12 O11 SING N N 20 VJ4 C12 C21 SING N N 21 VJ4 C14 C15 SING N N 22 VJ4 O11 C15 SING N N 23 VJ4 C21 C31 SING N N 24 VJ4 C15 C16 SING N N 25 VJ4 C16 C17 SING N N 26 VJ4 C31 C41 SING N N 27 VJ4 C17 C18 SING N N 28 VJ4 C18 C7 SING N N 29 VJ4 C41 C51 SING N N 30 VJ4 C7 C8 SING N N 31 VJ4 C8 C9 SING N N 32 VJ4 C9 C10 SING N N 33 VJ4 C10 C11 SING N N 34 VJ4 N2 HN21 SING N N 35 VJ4 O6 HO6 SING N N 36 VJ4 C13 H37 SING N N 37 VJ4 C14 H38 SING N N 38 VJ4 C14 H6 SING N N 39 VJ4 C15 H7 SING N N 40 VJ4 C16 H8 SING N N 41 VJ4 C16 H9 SING N N 42 VJ4 O7 H10 SING N N 43 VJ4 C17 H11 SING N N 44 VJ4 C17 H12 SING N N 45 VJ4 O8 H13 SING N N 46 VJ4 C18 H14 SING N N 47 VJ4 C18 H15 SING N N 48 VJ4 C7 H16 SING N N 49 VJ4 C7 H17 SING N N 50 VJ4 C8 H18 SING N N 51 VJ4 C8 H19 SING N N 52 VJ4 C9 H20 SING N N 53 VJ4 C9 H21 SING N N 54 VJ4 C10 H22 SING N N 55 VJ4 C10 H23 SING N N 56 VJ4 C11 H24 SING N N 57 VJ4 C11 H25 SING N N 58 VJ4 C11 H26 SING N N 59 VJ4 O2 H27 SING N N 60 VJ4 C21 H28 SING N N 61 VJ4 C21 H29 SING N N 62 VJ4 C31 H30 SING N N 63 VJ4 C31 H31 SING N N 64 VJ4 C41 H32 SING N N 65 VJ4 C41 H33 SING N N 66 VJ4 C51 H34 SING N N 67 VJ4 C51 H35 SING N N 68 VJ4 C51 H36 SING N N 69 VJ4 O3 HO3 SING N N 70 VJ4 C1 H1 SING N N 71 VJ4 C2 H2 SING N N 72 VJ4 C3 H3 SING N N 73 VJ4 C4 H4 SING N N 74 VJ4 C5 H5 SING N N 75 VJ4 C6 H61 SING N N 76 VJ4 C6 H62 SING N N 77 VJ4 C1 O1 SING N N 78 VJ4 O1 H39 SING N N 79 # # 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 VJ4 SMILES ACDLabs 12.01 "N(C(CC(OC(=O)CCCC)CCCCCCCC)O)C1C(OC(C(OP(O)(=O)O)C1O)CO)O" VJ4 InChI InChI 1.03 "InChI=1S/C22H44NO11P/c1-3-5-7-8-9-10-11-15(32-18(26)12-6-4-2)13-17(25)23-19-20(27)21(34-35(29,30)31)16(14-24)33-22(19)28/h15-17,19-25,27-28H,3-14H2,1-2H3,(H2,29,30,31)/t15-,16-,17+,19-,20-,21-,22-/m1/s1" VJ4 InChIKey InChI 1.03 IXXWGAPLUMTSOK-GHZJMGJXSA-N VJ4 SMILES_CANONICAL CACTVS 3.385 "CCCCCCCC[C@H](C[C@H](O)N[C@H]1[C@H](O)O[C@H](CO)[C@@H](O[P](O)(O)=O)[C@@H]1O)OC(=O)CCCC" VJ4 SMILES CACTVS 3.385 "CCCCCCCC[CH](C[CH](O)N[CH]1[CH](O)O[CH](CO)[CH](O[P](O)(O)=O)[CH]1O)OC(=O)CCCC" VJ4 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCCCCCC[C@H](C[C@@H](N[C@@H]1[C@H]([C@@H]([C@H](O[C@H]1O)CO)OP(=O)(O)O)O)O)OC(=O)CCCC" VJ4 SMILES "OpenEye OEToolkits" 2.0.7 "CCCCCCCCC(CC(NC1C(C(C(OC1O)CO)OP(=O)(O)O)O)O)OC(=O)CCCC" # # 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 VJ4 "SYSTEMATIC NAME" ACDLabs 12.01 "2-deoxy-2-{[(1S,3R)-1-hydroxy-3-(pentanoyloxy)undecyl]amino}-4-O-phosphono-beta-D-glucopyranose" VJ4 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(1~{S},3~{R})-1-[[(2~{R},3~{R},4~{R},5~{S},6~{R})-6-(hydroxymethyl)-2,4-bis(oxidanyl)-5-phosphonooxy-oxan-3-yl]amino]-1-oxidanyl-undecan-3-yl] pentanoate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VJ4 "Create component" 2020-08-13 RCSB VJ4 "Initial release" 2020-08-26 RCSB ##