data_Z7P
#
_chem_comp.id Z7P
_chem_comp.name
"(2R,3R,4S,5S,6R)-3,4-dihydroxy-5-[(E)-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene)amino]-6-methyloxan-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]methyl dihydrogen diphosphate (non-preferred name)"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C23 H33 N4 O20 P3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2021-04-12
_chem_comp.pdbx_modified_date 2021-04-23
_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 778.444
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code Z7P
_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 7MFP
_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.pdbx_backbone_atom_flag
_chem_comp_atom.pdbx_n_terminal_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
Z7P O41 O1 O 0 1 N N N N N N -17.487 5.191 32.431 -7.295 5.741 -2.541 O41 Z7P 1
Z7P C41 C1 C 0 1 N N N N N N -16.807 5.509 31.445 -7.201 4.868 -1.698 C41 Z7P 2
Z7P C51 C2 C 0 1 N N N N N N -16.177 4.551 30.640 -7.022 5.207 -0.335 C51 Z7P 3
Z7P C61 C3 C 0 1 N N N N N N -15.400 4.970 29.590 -6.922 4.219 0.580 C61 Z7P 4
Z7P N31 N1 N 0 1 N N N N N N -16.612 6.814 31.148 -7.273 3.569 -2.053 N31 Z7P 5
Z7P C21 C4 C 0 1 N N N N N N -15.852 7.251 30.137 -7.170 2.604 -1.120 C21 Z7P 6
Z7P O21 O2 O 0 1 N N N N N N -15.692 8.483 29.940 -7.237 1.437 -1.454 O21 Z7P 7
Z7P N11 N2 N 0 1 N N N N N N -15.237 6.302 29.309 -6.994 2.913 0.178 N11 Z7P 8
Z7P C1 C5 C 0 1 N N R N N N -14.374 6.718 28.203 -6.885 1.841 1.170 C1 Z7P 9
Z7P O4 O3 O 0 1 N N N N N N -14.676 6.058 26.978 -5.926 0.849 0.744 O4 Z7P 10
Z7P C2 C6 C 0 1 N N R N N N -12.954 6.243 28.468 -8.212 1.045 1.262 C2 Z7P 11
Z7P O2 O4 O 0 1 N N N N N N -12.319 7.205 29.250 -9.117 1.666 2.178 O2 Z7P 12
Z7P C3 C7 C 0 1 N N S N N N -12.336 6.131 27.113 -7.732 -0.324 1.803 C3 Z7P 13
Z7P O3 O5 O 0 1 N N N N N N -11.950 7.474 26.692 -7.923 -0.398 3.217 O3 Z7P 14
Z7P C4 C8 C 0 1 N N R N N N -13.515 5.700 26.221 -6.231 -0.362 1.456 C4 Z7P 15
Z7P C5 C9 C 0 1 N N N N N N -13.559 4.225 25.843 -5.933 -1.574 0.571 C5 Z7P 16
Z7P O5 O6 O 0 1 N N N N N N -13.459 3.472 27.059 -4.526 -1.658 0.336 O5 Z7P 17
Z7P P P1 P 0 1 N N N N N N -12.668 2.169 27.231 -3.853 -2.816 -0.558 P Z7P 18
Z7P O1P O7 O 0 1 N N N N N N -11.224 2.111 26.802 -4.253 -4.140 -0.031 O1P Z7P 19
Z7P O2P O8 O 0 1 N N N N N N -12.760 1.808 28.690 -4.348 -2.672 -2.083 O2P Z7P 20
Z7P OPP O9 O 0 1 N N N N N N -13.410 0.956 26.507 -2.250 -2.677 -0.498 OPP Z7P 21
Z7P P2 P2 P 0 1 N N N N N N -13.331 0.361 25.032 -1.028 -3.648 -0.891 P2 Z7P 22
Z7P O3P O10 O 0 1 N N N N N N -12.993 1.449 24.019 -1.350 -5.035 -0.487 O3P Z7P 23
Z7P O4P O11 O 0 1 N N N N N N -12.594 -0.922 25.113 -0.790 -3.594 -2.483 O4P Z7P 24
Z7P O1G O12 O 0 1 N N N N N N -14.893 -0.106 24.801 0.307 -3.165 -0.132 O1G Z7P 25
Z7P C1G C10 C 0 1 N N R N N N -15.915 0.879 24.913 1.541 -3.884 -0.193 C1G Z7P 26
Z7P O5G O13 O 0 1 N N N N N N -16.261 1.296 23.583 2.313 -3.413 -1.298 O5G Z7P 27
Z7P C5G C11 C 0 1 N N R N N N -16.912 0.330 22.773 2.617 -2.017 -1.246 C5G Z7P 28
Z7P C6G C12 C 0 1 N N N N N N -17.094 0.928 21.379 3.418 -1.622 -2.488 C6G Z7P 29
Z7P C4G C13 C 0 1 N N S N N N -18.285 0.021 23.419 3.443 -1.724 0.009 C4G Z7P 30
Z7P C3G C14 C 0 1 N N S N N N -18.090 -0.539 24.859 2.659 -2.177 1.245 C3G Z7P 31
Z7P O3G O14 O 0 1 N N N N N N -19.324 -0.467 25.573 3.453 -1.974 2.416 O3G Z7P 32
Z7P C2G C15 C 0 1 N N R N N N -17.103 0.304 25.705 2.323 -3.665 1.105 C2G Z7P 33
Z7P O2G O15 O 0 1 N N N N N N -16.572 -0.395 26.831 1.529 -4.082 2.217 O2G Z7P 34
Z7P N4A N3 N 0 1 N N N N N N -18.963 -0.939 22.500 3.706 -0.285 0.097 N4A Z7P 35
Z7P C4A C16 C 0 1 N N N N N N -19.673 -1.907 22.914 4.923 0.151 0.101 C4A Z7P 36
Z7P C4L C17 C 0 1 Y N N N N N -20.280 -2.811 21.931 5.188 1.600 0.190 C4L Z7P 37
Z7P C3L C18 C 0 1 Y N N N N N -20.139 -2.500 20.485 4.133 2.523 0.276 C3L Z7P 38
Z7P O3L O16 O 0 1 N N N N N N -19.428 -1.379 20.104 2.843 2.100 0.275 O3L Z7P 39
Z7P C2L C19 C 0 1 Y N N N N N -20.772 -3.404 19.512 4.432 3.876 0.363 C2L Z7P 40
Z7P C2A C20 C 0 1 N N N N N N -20.672 -3.178 18.047 3.313 4.881 0.457 C2A Z7P 41
Z7P C5L C21 C 0 1 Y N N N N N -21.024 -4.019 22.340 6.498 2.094 0.196 C5L Z7P 42
Z7P C6L C22 C 0 1 Y N N N N N -21.561 -4.807 21.317 6.700 3.456 0.280 C6L Z7P 43
Z7P N1L N4 N 0 1 Y N N N N N -21.436 -4.495 19.976 5.682 4.291 0.365 N1L Z7P 44
Z7P C5B C23 C 0 1 N N N N N N -21.210 -4.425 23.779 7.670 1.151 0.112 C5B Z7P 45
Z7P OP4 O17 O 0 1 N N N N N N -22.025 -3.531 24.506 8.887 1.901 0.136 OP4 Z7P 46
Z7P PL P3 P 0 1 N N N N N N -21.712 -3.372 26.082 10.341 1.215 0.063 PL Z7P 47
Z7P OP1 O18 O 0 1 N N N N N N -22.703 -2.409 26.565 11.476 2.342 0.246 OP1 Z7P 48
Z7P OP2 O19 O 0 1 N N N N N N -20.325 -2.707 26.246 10.467 0.209 1.141 OP2 Z7P 49
Z7P OP3 O20 O 0 1 N N N N N N -21.687 -4.825 26.586 10.524 0.496 -1.365 OP3 Z7P 50
Z7P H1 H1 H 0 1 N N N N N N -16.301 3.498 30.843 -6.966 6.241 -0.032 H1 Z7P 51
Z7P H2 H2 H 0 1 N N N N N N -14.906 4.235 28.972 -6.784 4.458 1.624 H2 Z7P 52
Z7P H3 H3 H 0 1 N N N N N N -17.065 7.497 31.721 -7.400 3.329 -2.984 H3 Z7P 53
Z7P H4 H4 H 0 1 N N N N N N -14.389 7.812 28.085 -6.613 2.247 2.144 H4 Z7P 54
Z7P H5 H5 H 0 1 N N N N N N -12.973 5.260 28.962 -8.670 0.937 0.279 H5 Z7P 55
Z7P H6 H6 H 0 1 N N N N N N -12.738 7.248 30.102 -9.962 1.205 2.270 H6 Z7P 56
Z7P H7 H7 H 0 1 N N N N N N -11.507 5.408 27.081 -8.260 -1.137 1.304 H7 Z7P 57
Z7P H8 H8 H 0 1 N N N N N N -11.222 7.775 27.222 -8.846 -0.321 3.494 H8 Z7P 58
Z7P H9 H9 H 0 1 N N N N N N -13.480 6.294 25.296 -5.641 -0.414 2.370 H9 Z7P 59
Z7P H10 H10 H 0 1 N N N N N N -14.507 3.995 25.334 -6.273 -2.481 1.071 H10 Z7P 60
Z7P H11 H11 H 0 1 N N N N N N -12.717 3.981 25.178 -6.454 -1.467 -0.381 H11 Z7P 61
Z7P H12 H12 H 0 1 N N N N N N -11.891 1.622 29.026 -4.120 -1.827 -2.493 H12 Z7P 62
Z7P H13 H13 H 0 1 N N N N N N -11.911 -0.938 24.453 -0.574 -2.713 -2.818 H13 Z7P 63
Z7P H14 H14 H 0 1 N N N N N N -15.526 1.743 25.471 1.336 -4.947 -0.319 H14 Z7P 64
Z7P H15 H15 H 0 1 N N N N N N -16.323 -0.596 22.705 1.691 -1.444 -1.213 H15 Z7P 65
Z7P H16 H16 H 0 1 N N N N N N -16.108 1.140 20.939 4.345 -2.196 -2.520 H16 Z7P 66
Z7P H17 H17 H 0 1 N N N N N N -17.634 0.213 20.741 2.830 -1.831 -3.381 H17 Z7P 67
Z7P H18 H18 H 0 1 N N N N N N -17.671 1.862 21.453 3.651 -0.558 -2.447 H18 Z7P 68
Z7P H19 H19 H 0 1 N N N N N N -18.869 0.952 23.477 4.388 -2.265 -0.041 H19 Z7P 69
Z7P H20 H20 H 0 1 N N N N N N -17.727 -1.576 24.799 1.738 -1.600 1.324 H20 Z7P 70
Z7P H21 H21 H 0 1 N N N N N N -19.621 -1.345 25.782 3.017 -2.240 3.237 H21 Z7P 71
Z7P H22 H22 H 0 1 N N N N N N -17.674 1.165 26.082 3.245 -4.246 1.076 H22 Z7P 72
Z7P H23 H23 H 0 1 N N N N N N -15.977 0.174 27.306 1.275 -5.015 2.192 H23 Z7P 73
Z7P H24 H24 H 0 1 N N N N N N -19.827 -2.062 23.972 5.746 -0.545 0.040 H24 Z7P 74
Z7P H25 H25 H 0 1 N N N N N N -19.102 -0.933 20.877 2.489 1.917 1.156 H25 Z7P 75
Z7P H26 H26 H 0 1 N N N N N N -21.190 -3.989 17.514 3.022 5.195 -0.545 H26 Z7P 76
Z7P H27 H27 H 0 1 N N N N N N -21.139 -2.215 17.792 2.459 4.428 0.959 H27 Z7P 77
Z7P H28 H28 H 0 1 N N N N N N -19.613 -3.162 17.750 3.651 5.748 1.025 H28 Z7P 78
Z7P H29 H29 H 0 1 N N N N N N -22.100 -5.703 21.588 7.707 3.844 0.286 H29 Z7P 79
Z7P H30 H30 H 0 1 N N N N N N -21.675 -5.422 23.804 7.648 0.467 0.960 H30 Z7P 80
Z7P H31 H31 H 0 1 N N N N N N -20.222 -4.469 24.261 7.613 0.582 -0.816 H31 Z7P 81
Z7P H32 H32 H 0 1 N N N N N N -22.262 -1.620 26.858 12.380 1.999 0.213 H32 Z7P 82
Z7P H33 H33 H 0 1 N N N N N N -20.817 -5.036 26.904 10.454 1.097 -2.120 H33 Z7P 83
#
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
Z7P C2A C2L SING N N 1
Z7P C2L N1L DOUB Y N 2
Z7P C2L C3L SING Y N 3
Z7P N1L C6L SING Y N 4
Z7P O3L C3L SING N N 5
Z7P C3L C4L DOUB Y N 6
Z7P C6L C5L DOUB Y N 7
Z7P C6G C5G SING N N 8
Z7P C4L C5L SING Y N 9
Z7P C4L C4A SING N N 10
Z7P C5L C5B SING N N 11
Z7P N4A C4A DOUB N N 12
Z7P N4A C4G SING N N 13
Z7P C5G C4G SING N N 14
Z7P C5G O5G SING N N 15
Z7P C4G C3G SING N N 16
Z7P O5G C1G SING N N 17
Z7P C5B OP4 SING N N 18
Z7P O3P P2 DOUB N N 19
Z7P OP4 PL SING N N 20
Z7P O1G C1G SING N N 21
Z7P O1G P2 SING N N 22
Z7P C3G O3G SING N N 23
Z7P C3G C2G SING N N 24
Z7P C1G C2G SING N N 25
Z7P P2 O4P SING N N 26
Z7P P2 OPP SING N N 27
Z7P C2G O2G SING N N 28
Z7P C5 C4 SING N N 29
Z7P C5 O5 SING N N 30
Z7P PL OP2 DOUB N N 31
Z7P PL OP1 SING N N 32
Z7P PL OP3 SING N N 33
Z7P C4 O4 SING N N 34
Z7P C4 C3 SING N N 35
Z7P OPP P SING N N 36
Z7P O3 C3 SING N N 37
Z7P O1P P DOUB N N 38
Z7P O4 C1 SING N N 39
Z7P O5 P SING N N 40
Z7P C3 C2 SING N N 41
Z7P P O2P SING N N 42
Z7P C1 C2 SING N N 43
Z7P C1 N11 SING N N 44
Z7P C2 O2 SING N N 45
Z7P N11 C61 SING N N 46
Z7P N11 C21 SING N N 47
Z7P C61 C51 DOUB N N 48
Z7P O21 C21 DOUB N N 49
Z7P C21 N31 SING N N 50
Z7P C51 C41 SING N N 51
Z7P N31 C41 SING N N 52
Z7P C41 O41 DOUB N N 53
Z7P C51 H1 SING N N 54
Z7P C61 H2 SING N N 55
Z7P N31 H3 SING N N 56
Z7P C1 H4 SING N N 57
Z7P C2 H5 SING N N 58
Z7P O2 H6 SING N N 59
Z7P C3 H7 SING N N 60
Z7P O3 H8 SING N N 61
Z7P C4 H9 SING N N 62
Z7P C5 H10 SING N N 63
Z7P C5 H11 SING N N 64
Z7P O2P H12 SING N N 65
Z7P O4P H13 SING N N 66
Z7P C1G H14 SING N N 67
Z7P C5G H15 SING N N 68
Z7P C6G H16 SING N N 69
Z7P C6G H17 SING N N 70
Z7P C6G H18 SING N N 71
Z7P C4G H19 SING N N 72
Z7P C3G H20 SING N N 73
Z7P O3G H21 SING N N 74
Z7P C2G H22 SING N N 75
Z7P O2G H23 SING N N 76
Z7P C4A H24 SING N N 77
Z7P O3L H25 SING N N 78
Z7P C2A H26 SING N N 79
Z7P C2A H27 SING N N 80
Z7P C2A H28 SING N N 81
Z7P C6L H29 SING N N 82
Z7P C5B H30 SING N N 83
Z7P C5B H31 SING N N 84
Z7P OP1 H32 SING N N 85
Z7P OP3 H33 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
Z7P SMILES ACDLabs 12.01 O=C1C=CN(C(=O)N1)C1OC(COP(=O)(O)OP(=O)(O)OC2OC(C)C(/N=C/c3c(COP(=O)(O)O)cnc(C)c3O)C(O)C2O)C(O)C1O
Z7P InChI InChI 1.03 InChI=1S/C23H33N4O20P3/c1-9-16(29)12(11(5-24-9)7-42-48(35,36)37)6-25-15-10(2)44-22(20(33)18(15)31)46-50(40,41)47-49(38,39)43-8-13-17(30)19(32)21(45-13)27-4-3-14(28)26-23(27)34/h3-6,10,13,15,17-22,29-33H,7-8H2,1-2H3,(H,38,39)(H,40,41)(H,26,28,34)(H2,35,36,37)/b25-6+/t10-,13-,15-,17-,18+,19-,20-,21-,22-/m1/s1
Z7P InChIKey InChI 1.03 YCGRRMXEGFNOLB-XUIBUIKDSA-N
Z7P SMILES_CANONICAL CACTVS 3.385 C[C@H]1O[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](O)[C@@H](O)[C@@H]1N=Cc4c(O)c(C)ncc4CO[P](O)(O)=O
Z7P SMILES CACTVS 3.385 C[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)[CH](O)[CH](O)[CH]1N=Cc4c(O)c(C)ncc4CO[P](O)(O)=O
Z7P SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 Cc1c(c(c(cn1)COP(=O)(O)O)/C=N/[C@@H]2[C@H](O[C@@H]([C@@H]([C@H]2O)O)OP(=O)(O)OP(=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)N4C=CC(=O)NC4=O)O)O)C)O
Z7P SMILES "OpenEye OEToolkits" 2.0.7 Cc1c(c(c(cn1)COP(=O)(O)O)C=NC2C(OC(C(C2O)O)OP(=O)(O)OP(=O)(O)OCC3C(C(C(O3)N4C=CC(=O)NC4=O)O)O)C)O
#
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
Z7P "SYSTEMATIC NAME" ACDLabs 12.01 "(2R,3R,4S,5S,6R)-3,4-dihydroxy-5-[(E)-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene)amino]-6-methyloxan-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]methyl dihydrogen diphosphate (non-preferred name)"
Z7P "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[[(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] [(2~{R},3~{R},4~{S},5~{S},6~{R})-6-methyl-5-[(~{E})-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]-3,4-bis(oxidanyl)oxan-2-yl] 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
Z7P 'Create component' 2021-04-12 RCSB
Z7P 'Initial release' 2021-04-28 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
Z7P O41 O -12.336 4.843 1
Z7P C41 C -10.844 5.004 2
Z7P C51 C -10.240 6.377 3
Z7P C61 C -8.748 6.534 4
Z7P N31 N -9.961 3.791 5
Z7P C21 C -8.470 3.955 6
Z7P O21 O -7.584 2.743 7
Z7P N11 N -7.860 5.325 8
Z7P C1 C -6.373 5.484 9
Z7P O4 O -5.370 4.374 10
Z7P C2 C -5.620 6.785 11
Z7P O2 O -6.230 8.155 12
Z7P C3 C -4.154 6.469 13
Z7P O3 O -3.037 7.472 14
Z7P C4 C -3.997 4.978 15
Z7P C5 C -2.681 4.146 16
Z7P O5 O -1.420 4.863 17
Z7P P P 0.014 4.283 18
Z7P O1P O 0.390 5.712 19
Z7P O2P O -0.387 2.814 20
Z7P OPP O 1.557 4.080 21
Z7P P2 P 2.547 2.883 22
Z7P O3P O 3.561 3.957 23
Z7P O4P O 1.507 1.771 24
Z7P O1G O 3.798 1.952 25
Z7P C1G C 3.806 0.498 26
Z7P O5G O 2.507 -0.254 27
Z7P C5G C 2.514 -1.755 28
Z7P C6G C 1.215 -2.507 29
Z7P C4G C 3.812 -2.500 30
Z7P C3G C 5.112 -1.749 31
Z7P O3G O 6.411 -2.496 32
Z7P C2G C 5.107 -0.249 33
Z7P O2G O 6.405 0.503 34
Z7P N4A N 3.816 -4.001 35
Z7P C4A C 2.518 -4.753 36
Z7P C4L C 2.523 -6.253 37
Z7P C3L C 1.223 -7.004 38
Z7P O3L O -0.076 -6.258 39
Z7P C2L C 1.228 -8.505 40
Z7P C2A C -0.071 -9.258 41
Z7P C5L C 3.821 -6.999 42
Z7P C6L C 3.827 -8.501 43
Z7P N1L N 2.527 -9.252 44
Z7P C5B C 5.120 -6.247 45
Z7P OP4 O 6.421 -6.995 46
Z7P PL P 7.718 -6.242 47
Z7P OP1 O 8.471 -7.540 48
Z7P OP2 O 9.016 -5.490 49
Z7P OP3 O 6.966 -4.945 50
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
Z7P C2A C2L SINGLE NONE 1
Z7P C2L N1L SINGLE NONE 2
Z7P C2L C3L DOUBLE NONE 3
Z7P N1L C6L DOUBLE NONE 4
Z7P O3L C3L SINGLE NONE 5
Z7P C3L C4L SINGLE NONE 6
Z7P C6L C5L SINGLE NONE 7
Z7P C5G C6G SINGLE BEGINWEDGE 8
Z7P C4L C5L DOUBLE NONE 9
Z7P C4L C4A SINGLE ENDDOWNRIGHT 10
Z7P C5L C5B SINGLE NONE 11
Z7P N4A C4A DOUBLE NONE 12
Z7P C4G N4A SINGLE BEGINDASH 13
Z7P C5G C4G SINGLE NONE 14
Z7P C5G O5G SINGLE NONE 15
Z7P C4G C3G SINGLE NONE 16
Z7P O5G C1G SINGLE NONE 17
Z7P C5B OP4 SINGLE NONE 18
Z7P O3P P2 DOUBLE NONE 19
Z7P OP4 PL SINGLE NONE 20
Z7P C1G O1G SINGLE BEGINDASH 21
Z7P O1G P2 SINGLE NONE 22
Z7P C3G O3G SINGLE BEGINWEDGE 23
Z7P C3G C2G SINGLE NONE 24
Z7P C1G C2G SINGLE NONE 25
Z7P P2 O4P SINGLE BEGINWEDGE 26
Z7P P2 OPP SINGLE NONE 27
Z7P C2G O2G SINGLE BEGINDASH 28
Z7P C4 C5 SINGLE BEGINWEDGE 29
Z7P C5 O5 SINGLE NONE 30
Z7P PL OP2 DOUBLE NONE 31
Z7P PL OP1 SINGLE NONE 32
Z7P PL OP3 SINGLE NONE 33
Z7P C4 O4 SINGLE NONE 34
Z7P C4 C3 SINGLE NONE 35
Z7P OPP P SINGLE NONE 36
Z7P C3 O3 SINGLE BEGINDASH 37
Z7P O1P P DOUBLE NONE 38
Z7P O4 C1 SINGLE NONE 39
Z7P O5 P SINGLE NONE 40
Z7P C3 C2 SINGLE NONE 41
Z7P P O2P SINGLE BEGINWEDGE 42
Z7P C1 C2 SINGLE NONE 43
Z7P C1 N11 SINGLE BEGINWEDGE 44
Z7P C2 O2 SINGLE BEGINDASH 45
Z7P N11 C61 SINGLE NONE 46
Z7P N11 C21 SINGLE NONE 47
Z7P C61 C51 DOUBLE NONE 48
Z7P O21 C21 DOUBLE NONE 49
Z7P C21 N31 SINGLE NONE 50
Z7P C51 C41 SINGLE NONE 51
Z7P N31 C41 SINGLE NONE 52
Z7P C41 O41 DOUBLE NONE 53
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
Z7P MurckoScaffold S1 scaffold 'O=c1ccn([C@H]2CC[C@@H](CO[PH](=O)O[PH](=O)O[C@@H]3CC[C@H](/N=C/c4ccncc4)CO3)O2)c(=O)[nH]1' InChI=1S/C20H26N4O9P2/c25-17-7-10-24(20(26)23-17)18-3-2-16(31-18)13-30-34(27)33-35(28)32-19-4-1-15(12-29-19)22-11-14-5-8-21-9-6-14/h5-11,15-16,18-19,34-35H,1-4,12-13H2,(H,23,25,26)/b22-11+/t15-,16-,18+,19+/m0/s1 XJHCTFSMUYUEKC-TUHUWRINSA-N
Z7P phosphate F1 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-UHFFFAOYSA-N
Z7P pyranose F2 fragment OC1CCCCO1 InChI=1S/C5H10O2/c6-5-3-1-2-4-7-5/h5-6H,1-4H2 CELWCAITJAEQNL-UHFFFAOYSA-N
Z7P pyridine F3 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
Z7P pyrimidine F4 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
Z7P ribose F5 fragment OCC1OCC(O)C1O InChI=1S/C5H10O4/c6-1-4-5(8)3(7)2-9-4/h3-8H,1-2H2 KZVAAIRBJJYZOW-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
Z7P O41 S1 1
Z7P C41 S1 1
Z7P C51 S1 1
Z7P C61 S1 1
Z7P N31 S1 1
Z7P C21 S1 1
Z7P O21 S1 1
Z7P N11 S1 1
Z7P C1 S1 1
Z7P O4 S1 1
Z7P C2 S1 1
Z7P C3 S1 1
Z7P C4 S1 1
Z7P C5 S1 1
Z7P O5 S1 1
Z7P P S1 1
Z7P O1P S1 1
Z7P OPP S1 1
Z7P P2 S1 1
Z7P O3P S1 1
Z7P O1G S1 1
Z7P C1G S1 1
Z7P O5G S1 1
Z7P C5G S1 1
Z7P C4G S1 1
Z7P C3G S1 1
Z7P C2G S1 1
Z7P N4A S1 1
Z7P C4A S1 1
Z7P C4L S1 1
Z7P C3L S1 1
Z7P C2L S1 1
Z7P C5L S1 1
Z7P C6L S1 1
Z7P N1L S1 1
Z7P O5 F1 1
Z7P P F1 1
Z7P O1P F1 1
Z7P OPP F1 1
Z7P O2P F1 1
Z7P OPP F1 2
Z7P P2 F1 2
Z7P O3P F1 2
Z7P O1G F1 2
Z7P O4P F1 2
Z7P OP4 F1 3
Z7P PL F1 3
Z7P OP2 F1 3
Z7P OP1 F1 3
Z7P OP3 F1 3
Z7P C4G F2 1
Z7P C5G F2 1
Z7P O5G F2 1
Z7P C1G F2 1
Z7P C2G F2 1
Z7P C3G F2 1
Z7P O1G F2 1
Z7P C2L F3 1
Z7P C3L F3 1
Z7P C4L F3 1
Z7P C5L F3 1
Z7P C6L F3 1
Z7P N1L F3 1
Z7P C51 F4 1
Z7P C61 F4 1
Z7P N11 F4 1
Z7P C21 F4 1
Z7P N31 F4 1
Z7P C41 F4 1
Z7P C2 F5 1
Z7P C3 F5 1
Z7P C4 F5 1
Z7P O4 F5 1
Z7P C1 F5 1
Z7P C5 F5 1
Z7P O5 F5 1
Z7P O3 F5 1
Z7P O2 F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id Z7P
_pdbe_chem_comp_rdkit_properties.exactmw 778.090
_pdbe_chem_comp_rdkit_properties.amw 778.447
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 24
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 10
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 24
_pdbe_chem_comp_rdkit_properties.NumHBD 10
_pdbe_chem_comp_rdkit_properties.NumHBA 23
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 50
_pdbe_chem_comp_rdkit_properties.NumAtoms 83
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 27
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.565
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 4
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 11
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 326.354
_pdbe_chem_comp_rdkit_properties.tpsa 368.770
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.448
_pdbe_chem_comp_rdkit_properties.CrippenMR 159.029
_pdbe_chem_comp_rdkit_properties.chi0v 25.479
_pdbe_chem_comp_rdkit_properties.chi1v 15.943
_pdbe_chem_comp_rdkit_properties.chi2v 7.463
_pdbe_chem_comp_rdkit_properties.chi3v 7.463
_pdbe_chem_comp_rdkit_properties.chi4v 4.877
_pdbe_chem_comp_rdkit_properties.chi0n 55.795
_pdbe_chem_comp_rdkit_properties.chi1n 27.183
_pdbe_chem_comp_rdkit_properties.chi2n 4.844
_pdbe_chem_comp_rdkit_properties.chi3n 4.844
_pdbe_chem_comp_rdkit_properties.chi4n 2.909
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.570
_pdbe_chem_comp_rdkit_properties.kappa1 14.689
_pdbe_chem_comp_rdkit_properties.kappa2 15.578
_pdbe_chem_comp_rdkit_properties.kappa3 9.847
_pdbe_chem_comp_rdkit_properties.Phi 4.577
#
_pdbe_chem_comp_external_mappings.comp_id Z7P
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PDBe
_pdbe_chem_comp_external_mappings.resource_id Z7P
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
Z7P O41 10.621 -3.170 3.261 ETKDGv3 1
Z7P C41 10.009 -2.243 2.668 ETKDGv3 2
Z7P C51 10.359 -0.842 2.932 ETKDGv3 3
Z7P C61 9.707 0.149 2.316 ETKDGv3 4
Z7P N31 8.975 -2.548 1.732 ETKDGv3 5
Z7P C21 8.292 -1.481 1.072 ETKDGv3 6
Z7P O21 7.403 -1.747 0.219 ETKDGv3 7
Z7P N11 8.634 -0.113 1.386 ETKDGv3 8
Z7P C1 7.985 1.023 0.711 ETKDGv3 9
Z7P O4 6.587 0.828 0.666 ETKDGv3 10
Z7P C2 8.521 1.190 -0.721 ETKDGv3 11
Z7P O2 9.147 2.441 -0.893 ETKDGv3 12
Z7P C3 7.285 1.033 -1.588 ETKDGv3 13
Z7P O3 7.236 1.963 -2.639 ETKDGv3 14
Z7P C4 6.152 1.271 -0.599 ETKDGv3 15
Z7P C5 4.874 0.531 -1.001 ETKDGv3 16
Z7P O5 3.861 0.827 -0.070 ETKDGv3 17
Z7P P 2.450 -0.024 -0.516 ETKDGv3 18
Z7P O1P 2.004 0.384 -1.903 ETKDGv3 19
Z7P O2P 2.766 -1.687 -0.511 ETKDGv3 20
Z7P OPP 1.195 0.281 0.592 ETKDGv3 21
Z7P P2 1.141 1.962 0.866 ETKDGv3 22
Z7P O3P 2.238 2.342 1.835 ETKDGv3 23
Z7P O4P 1.345 2.835 -0.573 ETKDGv3 24
Z7P O1G -0.362 2.375 1.564 ETKDGv3 25
Z7P C1G -1.402 1.970 0.699 ETKDGv3 26
Z7P O5G -1.566 0.562 0.777 ETKDGv3 27
Z7P C5G -2.414 0.060 -0.253 ETKDGv3 28
Z7P C6G -1.586 -0.334 -1.481 ETKDGv3 29
Z7P C4G -3.587 1.020 -0.625 ETKDGv3 30
Z7P C3G -3.955 1.890 0.596 ETKDGv3 31
Z7P O3G -5.019 2.762 0.302 ETKDGv3 32
Z7P C2G -2.720 2.675 1.110 ETKDGv3 33
Z7P O2G -2.806 2.786 2.510 ETKDGv3 34
Z7P N4A -4.749 0.288 -1.144 ETKDGv3 35
Z7P C4A -5.452 -0.567 -0.464 ETKDGv3 36
Z7P C4L -6.612 -1.255 -1.079 ETKDGv3 37
Z7P C3L -7.434 -0.531 -2.097 ETKDGv3 38
Z7P O3L -7.091 0.781 -2.443 ETKDGv3 39
Z7P C2L -8.501 -1.150 -2.650 ETKDGv3 40
Z7P C2A -9.368 -0.483 -3.677 ETKDGv3 41
Z7P C5L -6.965 -2.517 -0.721 ETKDGv3 42
Z7P C6L -8.152 -3.132 -1.354 ETKDGv3 43
Z7P N1L -8.840 -2.483 -2.242 ETKDGv3 44
Z7P C5B -6.189 -3.372 0.262 ETKDGv3 45
Z7P OP4 -6.982 -3.699 1.382 ETKDGv3 46
Z7P PL -6.869 -2.461 2.553 ETKDGv3 47
Z7P OP1 -7.680 -2.960 3.952 ETKDGv3 48
Z7P OP2 -7.516 -1.195 2.037 ETKDGv3 49
Z7P OP3 -5.249 -2.158 2.943 ETKDGv3 50
Z7P H1 11.156 -0.609 3.628 ETKDGv3 51
Z7P H2 9.998 1.170 2.530 ETKDGv3 52
Z7P H3 8.727 -3.542 1.526 ETKDGv3 53
Z7P H4 8.166 1.953 1.297 ETKDGv3 54
Z7P H5 9.257 0.396 -0.977 ETKDGv3 55
Z7P H6 8.482 3.150 -0.685 ETKDGv3 56
Z7P H7 7.240 -0.008 -1.988 ETKDGv3 57
Z7P H8 7.896 1.657 -3.314 ETKDGv3 58
Z7P H9 5.929 2.361 -0.536 ETKDGv3 59
Z7P H10 5.086 -0.563 -1.019 ETKDGv3 60
Z7P H11 4.580 0.872 -2.019 ETKDGv3 61
Z7P H12 3.060 -1.884 0.414 ETKDGv3 62
Z7P H13 1.216 3.782 -0.315 ETKDGv3 63
Z7P H14 -1.175 2.291 -0.348 ETKDGv3 64
Z7P H15 -2.846 -0.883 0.145 ETKDGv3 65
Z7P H16 -0.794 -1.054 -1.186 ETKDGv3 66
Z7P H17 -1.103 0.555 -1.938 ETKDGv3 67
Z7P H18 -2.237 -0.818 -2.240 ETKDGv3 68
Z7P H19 -3.247 1.705 -1.433 ETKDGv3 69
Z7P H20 -4.295 1.210 1.409 ETKDGv3 70
Z7P H21 -4.746 3.320 -0.473 ETKDGv3 71
Z7P H22 -2.718 3.692 0.651 ETKDGv3 72
Z7P H23 -2.326 3.616 2.767 ETKDGv3 73
Z7P H24 -5.184 -0.781 0.560 ETKDGv3 74
Z7P H25 -7.603 1.336 -3.116 ETKDGv3 75
Z7P H26 -8.763 -0.206 -4.566 ETKDGv3 76
Z7P H27 -10.173 -1.174 -4.007 ETKDGv3 77
Z7P H28 -9.843 0.422 -3.244 ETKDGv3 78
Z7P H29 -8.451 -4.137 -1.084 ETKDGv3 79
Z7P H30 -5.190 -2.974 0.536 ETKDGv3 80
Z7P H31 -5.950 -4.323 -0.258 ETKDGv3 81
Z7P H32 -8.592 -3.193 3.645 ETKDGv3 82
Z7P H33 -5.280 -1.417 3.599 ETKDGv3 83
#