data_2JU
#
_chem_comp.id 2JU
_chem_comp.name "2'-deoxy-5-[(naphthalen-1-ylmethyl)carbamoyl]uridine 5'-(dihydrogen phosphate)"
_chem_comp.type "DNA LINKING"
_chem_comp.pdbx_type ATOMN
_chem_comp.formula "C21 H22 N3 O9 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2013-11-12
_chem_comp.pdbx_modified_date 2014-01-17
_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 491.388
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 2JU
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 4NI7
_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
2JU P P P 0 1 N N N N N N 12.546 8.666 9.215 -7.254 1.699 0.105 P 2JU 1
2JU O1P O1P O 0 1 N N N N N N 12.048 9.734 10.384 -8.524 0.956 0.262 O1P 2JU 2
2JU O2P O2P O 0 1 N N N N N N 14.006 7.867 9.183 -6.818 2.325 1.523 O2P 2JU 3
2JU "O5'" "O5'" O 0 1 N N N N N N 11.422 7.890 8.208 -6.106 0.697 -0.416 "O5'" 2JU 4
2JU "C5'" "C5'" C 0 1 N N N N N N 11.134 6.677 8.883 -5.766 -0.514 0.261 "C5'" 2JU 5
2JU "C4'" "C4'" C 0 1 N N R N N N 10.169 5.820 8.117 -4.641 -1.223 -0.496 "C4'" 2JU 6
2JU "C3'" "C3'" C 0 1 N N S N N N 10.744 5.468 6.776 -4.315 -2.578 0.169 "C3'" 2JU 7
2JU "C2'" "C2'" C 0 1 N N N N N N 9.939 6.314 5.811 -2.780 -2.701 0.038 "C2'" 2JU 8
2JU "C1'" "C1'" C 0 1 N N R N N N 8.589 6.444 6.497 -2.361 -1.406 -0.692 "C1'" 2JU 9
2JU "O4'" "O4'" O 0 1 N N N N N N 8.900 6.460 7.892 -3.417 -0.461 -0.407 "O4'" 2JU 10
2JU N1 N1 N 0 1 N N N N N N 7.814 7.656 6.248 -1.083 -0.916 -0.168 N1 2JU 11
2JU C6 C6 C 0 1 N N N N N N 8.113 8.806 6.891 0.003 -0.892 -0.983 C6 2JU 12
2JU C5 C5 C 0 1 N N N N N N 7.333 9.939 6.682 1.208 -0.430 -0.491 C5 2JU 13
2JU C4 C4 C 0 1 N N N N N N 6.237 9.851 5.819 1.258 0.018 0.910 C4 2JU 14
2JU O4 O4 O 0 1 N N N N N N 5.456 10.810 5.534 2.294 0.434 1.393 O4 2JU 15
2JU N3 N3 N 0 1 N N N N N N 6.002 8.674 5.223 0.129 -0.042 1.647 N3 2JU 16
2JU C2 C2 C 0 1 N N N N N N 6.750 7.595 5.438 -1.014 -0.497 1.105 C2 2JU 17
2JU O2 O2 O 0 1 N N N N N N 6.419 6.541 4.851 -2.015 -0.539 1.794 O2 2JU 18
2JU C5M C5M C 0 1 N N N N N N 7.699 11.204 7.400 2.407 -0.389 -1.342 C5M 2JU 19
2JU N22 N22 N 0 1 N N N N N N 6.799 12.160 7.594 3.542 0.170 -0.879 N22 2JU 20
2JU C23 C23 C 0 1 N N N N N N 7.069 13.393 8.286 4.702 0.313 -1.764 C23 2JU 21
2JU C24 C24 C 0 1 Y N N N N N 7.166 14.531 7.288 5.833 0.962 -1.008 C24 2JU 22
2JU C29 C29 C 0 1 Y N N N N N 7.474 15.824 7.752 6.634 0.199 -0.142 C29 2JU 23
2JU C30 C30 C 0 1 Y N N N N N 7.684 16.069 9.126 6.405 -1.175 0.042 C30 2JU 24
2JU C31 C31 C 0 1 Y N N N N N 7.978 17.365 9.579 7.202 -1.883 0.890 C31 2JU 25
2JU C32 C32 C 0 1 Y N N N N N 8.063 18.409 8.647 8.243 -1.265 1.579 C32 2JU 26
2JU C33 C33 C 0 1 Y N N N N N 7.837 18.163 7.279 8.494 0.064 1.425 C33 2JU 27
2JU C28 C28 C 0 1 Y N N N N N 7.537 16.882 6.826 7.693 0.827 0.559 C28 2JU 28
2JU C27 C27 C 0 1 Y N N N N N 7.315 16.645 5.462 7.922 2.201 0.374 C27 2JU 29
2JU C26 C26 C 0 1 Y N N N N N 7.022 15.354 4.992 7.127 2.908 -0.474 C26 2JU 30
2JU C25 C25 C 0 1 Y N N N N N 6.934 14.308 5.922 6.087 2.290 -1.166 C25 2JU 31
2JU O21 O21 O 0 1 N N N N N N 8.825 11.335 7.838 2.373 -0.858 -2.464 O21 2JU 32
2JU "O3'" "O3'" O 0 1 N N N N N N 10.308 4.097 6.759 -4.967 -3.645 -0.522 "O3'" 2JU 33
2JU H2 H2 H 0 1 N N N N N N 14.520 8.115 9.942 -5.993 2.827 1.494 H2 2JU 34
2JU H3 H3 H 0 1 N N N N N N 10.697 6.912 9.865 -5.433 -0.284 1.273 H3 2JU 35
2JU H4 H4 H 0 1 N N N N N N 12.071 6.118 9.023 -6.640 -1.164 0.306 H4 2JU 36
2JU H5 H5 H 0 1 N N N N N N 10.009 4.889 8.681 -4.921 -1.370 -1.539 H5 2JU 37
2JU H6 H6 H 0 1 N N N N N N 11.831 5.616 6.699 -4.609 -2.569 1.219 H6 2JU 38
2JU H7 H7 H 0 1 N N N N N N 9.839 5.812 4.837 -2.317 -2.752 1.023 H7 2JU 39
2JU H8 H8 H 0 1 N N N N N N 10.405 7.300 5.669 -2.516 -3.577 -0.555 H8 2JU 40
2JU H9 H9 H 0 1 N N N N N N 7.981 5.560 6.255 -2.290 -1.581 -1.765 H9 2JU 41
2JU H10 H10 H 0 1 N N N N N N 8.955 8.846 7.566 -0.075 -1.230 -2.006 H10 2JU 42
2JU H11 H11 H 0 1 N N N N N N 5.231 8.604 4.590 0.140 0.253 2.571 H11 2JU 43
2JU H12 H12 H 0 1 N N N N N N 5.876 12.015 7.237 3.592 0.478 0.039 H12 2JU 44
2JU H13 H13 H 0 1 N N N N N N 8.019 13.305 8.833 5.015 -0.671 -2.113 H13 2JU 45
2JU H14 H14 H 0 1 N N N N N N 6.255 13.599 8.997 4.432 0.933 -2.619 H14 2JU 46
2JU H15 H15 H 0 1 N N N N N N 7.618 15.255 9.833 5.602 -1.668 -0.485 H15 2JU 47
2JU H16 H16 H 0 1 N N N N N N 8.136 17.555 10.630 7.024 -2.939 1.030 H16 2JU 48
2JU H17 H17 H 0 1 N N N N N N 8.303 19.408 8.980 8.860 -1.849 2.246 H17 2JU 49
2JU H18 H18 H 0 1 N N N N N N 7.897 18.978 6.573 9.305 0.529 1.967 H18 2JU 50
2JU H19 H19 H 0 1 N N N N N N 7.370 17.466 4.763 8.726 2.694 0.902 H19 2JU 51
2JU H20 H20 H 0 1 N N N N N N 6.868 15.171 3.939 7.305 3.964 -0.614 H20 2JU 52
2JU H21 H21 H 0 1 N N N N N N 6.684 13.314 5.581 5.471 2.874 -1.833 H21 2JU 53
2JU H22 H22 H 0 1 N N N N N N 10.829 3.591 7.372 -4.796 -4.520 -0.146 H22 2JU 54
2JU O3P O3P O 0 1 N Y N N N N ? ? ? -7.456 2.885 -0.965 O3P 2JU 55
2JU H1 H1 H 0 1 N N N N N N ? ? ? -8.134 3.528 -0.717 H1 2JU 56
#
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
2JU O2 C2 DOUB N N 1
2JU C26 C27 DOUB Y N 2
2JU C26 C25 SING Y N 3
2JU N3 C2 SING N N 4
2JU N3 C4 SING N N 5
2JU C2 N1 SING N N 6
2JU C27 C28 SING Y N 7
2JU O4 C4 DOUB N N 8
2JU "C2'" "C1'" SING N N 9
2JU "C2'" "C3'" SING N N 10
2JU C4 C5 SING N N 11
2JU C25 C24 DOUB Y N 12
2JU N1 "C1'" SING N N 13
2JU N1 C6 SING N N 14
2JU "C1'" "O4'" SING N N 15
2JU C5 C6 DOUB N N 16
2JU C5 C5M SING N N 17
2JU "O3'" "C3'" SING N N 18
2JU "C3'" "C4'" SING N N 19
2JU C28 C33 DOUB Y N 20
2JU C28 C29 SING Y N 21
2JU C33 C32 SING Y N 22
2JU C24 C29 SING Y N 23
2JU C24 C23 SING N N 24
2JU C5M N22 SING N N 25
2JU C5M O21 DOUB N N 26
2JU N22 C23 SING N N 27
2JU C29 C30 DOUB Y N 28
2JU "O4'" "C4'" SING N N 29
2JU "C4'" "C5'" SING N N 30
2JU "O5'" "C5'" SING N N 31
2JU "O5'" P SING N N 32
2JU C32 C31 DOUB Y N 33
2JU C30 C31 SING Y N 34
2JU O2P P SING N N 35
2JU P O1P DOUB N N 36
2JU O2P H2 SING N N 37
2JU "C5'" H3 SING N N 38
2JU "C5'" H4 SING N N 39
2JU "C4'" H5 SING N N 40
2JU "C3'" H6 SING N N 41
2JU "C2'" H7 SING N N 42
2JU "C2'" H8 SING N N 43
2JU "C1'" H9 SING N N 44
2JU C6 H10 SING N N 45
2JU N3 H11 SING N N 46
2JU N22 H12 SING N N 47
2JU C23 H13 SING N N 48
2JU C23 H14 SING N N 49
2JU C30 H15 SING N N 50
2JU C31 H16 SING N N 51
2JU C32 H17 SING N N 52
2JU C33 H18 SING N N 53
2JU C27 H19 SING N N 54
2JU C26 H20 SING N N 55
2JU C25 H21 SING N N 56
2JU "O3'" H22 SING N N 57
2JU P O3P SING N N 58
2JU O3P H1 SING N N 59
#
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
2JU SMILES ACDLabs 12.01 O=P(O)(O)OCC4OC(N3C(=O)NC(=O)C(C(=O)NCc2c1ccccc1ccc2)=C3)CC4O
2JU InChI InChI 1.03 InChI=1S/C21H22N3O9P/c25-16-8-18(33-17(16)11-32-34(29,30)31)24-10-15(20(27)23-21(24)28)19(26)22-9-13-6-3-5-12-4-1-2-7-14(12)13/h1-7,10,16-18,25H,8-9,11H2,(H,22,26)(H,23,27,28)(H2,29,30,31)/t16-,17+,18+/m0/s1
2JU InChIKey InChI 1.03 WFMYBIOITHHLFG-RCCFBDPRSA-N
2JU SMILES_CANONICAL CACTVS 3.385 O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=C(C(=O)NCc3cccc4ccccc34)C(=O)NC2=O
2JU SMILES CACTVS 3.385 O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)N2C=C(C(=O)NCc3cccc4ccccc34)C(=O)NC2=O
2JU SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 c1ccc2c(c1)cccc2CNC(=O)C3=CN(C(=O)NC3=O)[C@H]4C[C@@H]([C@H](O4)COP(=O)(O)O)O
2JU SMILES "OpenEye OEToolkits" 1.7.6 c1ccc2c(c1)cccc2CNC(=O)C3=CN(C(=O)NC3=O)C4CC(C(O4)COP(=O)(O)O)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
2JU "SYSTEMATIC NAME" ACDLabs 12.01 "2'-deoxy-5-[(naphthalen-1-ylmethyl)carbamoyl]uridine 5'-(dihydrogen phosphate)"
2JU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R,3S,5R)-5-[5-(naphthalen-1-ylmethylcarbamoyl)-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen 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
2JU 'Create component' 2013-11-12 RCSB
2JU 'Initial release' 2014-01-22 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.09.6 'Core functionality.'
pdbeccdutils 0.8.6 '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
2JU P P 4.213 -7.672 1
2JU O1P O 5.427 -8.554 2
2JU O2P O 3.332 -8.886 3
2JU "O5'" O 5.095 -6.459 4
2JU "C5'" C 4.485 -5.088 5
2JU "C4'" C 5.367 -3.875 6
2JU "C3'" C 6.867 -3.875 7
2JU "C2'" C 7.330 -2.448 8
2JU "C1'" C 6.117 -1.567 9
2JU "O4'" O 4.903 -2.448 10
2JU N1 N 6.117 -0.067 11
2JU C6 C 7.416 0.683 12
2JU C5 C 7.416 2.183 13
2JU C4 C 6.117 2.933 14
2JU O4 O 6.117 4.433 15
2JU N3 N 4.818 2.183 16
2JU C2 C 4.818 0.683 17
2JU O2 O 3.519 -0.067 18
2JU C5M C 8.715 2.933 19
2JU N22 N 8.715 4.433 20
2JU C23 C 10.014 5.183 21
2JU C24 C 10.014 6.683 22
2JU C29 C 11.313 7.433 23
2JU C30 C 12.654 6.631 24
2JU C31 C 14.013 7.402 25
2JU C32 C 14.013 8.965 26
2JU C33 C 12.654 9.735 27
2JU C28 C 11.313 8.933 28
2JU C27 C 10.014 9.683 29
2JU C26 C 8.715 8.933 30
2JU C25 C 8.715 7.433 31
2JU O21 O 10.014 2.183 32
2JU "O3'" O 7.748 -5.088 33
2JU O3P O 3.000 -6.790 34
#
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
2JU O2 C2 DOUBLE NONE 1
2JU C26 C27 DOUBLE NONE 2
2JU C26 C25 SINGLE NONE 3
2JU N3 C2 SINGLE NONE 4
2JU N3 C4 SINGLE NONE 5
2JU C2 N1 SINGLE NONE 6
2JU C27 C28 SINGLE NONE 7
2JU O4 C4 DOUBLE NONE 8
2JU "C2'" "C1'" SINGLE NONE 9
2JU "C2'" "C3'" SINGLE NONE 10
2JU C4 C5 SINGLE NONE 11
2JU C25 C24 DOUBLE NONE 12
2JU "C1'" N1 SINGLE BEGINWEDGE 13
2JU N1 C6 SINGLE NONE 14
2JU "C1'" "O4'" SINGLE NONE 15
2JU C5 C6 DOUBLE NONE 16
2JU C5 C5M SINGLE NONE 17
2JU "C3'" "O3'" SINGLE BEGINDASH 18
2JU "C3'" "C4'" SINGLE NONE 19
2JU C28 C33 DOUBLE NONE 20
2JU C28 C29 SINGLE NONE 21
2JU C33 C32 SINGLE NONE 22
2JU C24 C29 SINGLE NONE 23
2JU C24 C23 SINGLE NONE 24
2JU C5M N22 SINGLE NONE 25
2JU C5M O21 DOUBLE NONE 26
2JU N22 C23 SINGLE NONE 27
2JU C29 C30 DOUBLE NONE 28
2JU "O4'" "C4'" SINGLE NONE 29
2JU "C4'" "C5'" SINGLE BEGINWEDGE 30
2JU "O5'" "C5'" SINGLE NONE 31
2JU "O5'" P SINGLE NONE 32
2JU C32 C31 DOUBLE NONE 33
2JU C30 C31 SINGLE NONE 34
2JU O2P P SINGLE NONE 35
2JU P O1P DOUBLE NONE 36
2JU P O3P SINGLE NONE 37
#
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
2JU MurckoScaffold S1 scaffold 'O=C(NCc1cccc2ccccc12)c1cn([C@H]2CCCO2)c(=O)[nH]c1=O' InChI=1S/C20H19N3O4/c24-18(21-11-14-7-3-6-13-5-1-2-8-15(13)14)16-12-23(17-9-4-10-27-17)20(26)22-19(16)25/h1-3,5-8,12,17H,4,9-11H2,(H,21,24)(H,22,25,26)/t17-/m1/s1 NWPXXMCGSHJTBJ-QGZVFWFLSA-N
2JU amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
2JU deoxyribose F2 fragment 'OCC1OC[CH2]C1O' InChI=1S/C5H10O3/c6-3-5-4(7)1-2-8-5/h4-7H,1-3H2 NSMOSDAEGJTOIQ-UHFFFAOYSA-N
2JU napthalene F3 fragment c1ccc2ccccc2c1 InChI=1S/C10H8/c1-2-6-10-8-4-3-7-9(10)5-1/h1-8H UFWIBTONFRDIAS-UHFFFAOYSA-N
2JU phenyl F4 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
2JU phosphate F5 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-UHFFFAOYSA-N
2JU pyrimidine F6 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-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
2JU "C4'" S1 1
2JU "C3'" S1 1
2JU "C2'" S1 1
2JU "C1'" S1 1
2JU "O4'" S1 1
2JU N1 S1 1
2JU C6 S1 1
2JU C5 S1 1
2JU C4 S1 1
2JU O4 S1 1
2JU N3 S1 1
2JU C2 S1 1
2JU O2 S1 1
2JU C5M S1 1
2JU N22 S1 1
2JU C23 S1 1
2JU C24 S1 1
2JU C29 S1 1
2JU C30 S1 1
2JU C31 S1 1
2JU C32 S1 1
2JU C33 S1 1
2JU C28 S1 1
2JU C27 S1 1
2JU C26 S1 1
2JU C25 S1 1
2JU O21 S1 1
2JU N22 F1 1
2JU C5M F1 1
2JU O21 F1 1
2JU C5 F1 1
2JU "C1'" F2 1
2JU "C2'" F2 1
2JU "C3'" F2 1
2JU "O3'" F2 1
2JU "C4'" F2 1
2JU "O4'" F2 1
2JU "C5'" F2 1
2JU "O5'" F2 1
2JU C31 F3 1
2JU C32 F3 1
2JU C33 F3 1
2JU C28 F3 1
2JU C29 F3 1
2JU C30 F3 1
2JU C24 F3 1
2JU C25 F3 1
2JU C26 F3 1
2JU C27 F3 1
2JU C24 F4 1
2JU C25 F4 1
2JU C26 F4 1
2JU C27 F4 1
2JU C28 F4 1
2JU C29 F4 1
2JU C29 F4 2
2JU C28 F4 2
2JU C33 F4 2
2JU C32 F4 2
2JU C31 F4 2
2JU C30 F4 2
2JU O2P F5 1
2JU P F5 1
2JU O1P F5 1
2JU "O5'" F5 1
2JU H2 F5 1
2JU C5 F6 1
2JU C4 F6 1
2JU N3 F6 1
2JU C2 F6 1
2JU N1 F6 1
2JU C6 F6 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 2JU
_pdbe_chem_comp_rdkit_properties.exactmw 491.109
_pdbe_chem_comp_rdkit_properties.amw 491.393
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 12
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 5
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 10
_pdbe_chem_comp_rdkit_properties.NumHBD 5
_pdbe_chem_comp_rdkit_properties.NumHBA 10
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 34
_pdbe_chem_comp_rdkit_properties.NumAtoms 56
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 13
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.286
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 3
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 3
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 222.847
_pdbe_chem_comp_rdkit_properties.tpsa 180.180
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.639
_pdbe_chem_comp_rdkit_properties.CrippenMR 116.449
_pdbe_chem_comp_rdkit_properties.chi0v 16.858
_pdbe_chem_comp_rdkit_properties.chi1v 9.935
_pdbe_chem_comp_rdkit_properties.chi2v 4.015
_pdbe_chem_comp_rdkit_properties.chi3v 4.015
_pdbe_chem_comp_rdkit_properties.chi4v 2.519
_pdbe_chem_comp_rdkit_properties.chi0n 37.963
_pdbe_chem_comp_rdkit_properties.chi1n 19.094
_pdbe_chem_comp_rdkit_properties.chi2n 3.700
_pdbe_chem_comp_rdkit_properties.chi3n 3.700
_pdbe_chem_comp_rdkit_properties.chi4n 2.325
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.120
_pdbe_chem_comp_rdkit_properties.kappa1 8.829
_pdbe_chem_comp_rdkit_properties.kappa2 9.627
_pdbe_chem_comp_rdkit_properties.kappa3 5.333
_pdbe_chem_comp_rdkit_properties.Phi 2.500
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
2JU UniChem ZINC ZINC000098208184
2JU UniChem PubChem 137348053
#
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
2JU P 6.830 0.402 -2.121 ETKDGv3 1
2JU O1P 8.164 0.491 -1.414 ETKDGv3 2
2JU O2P 6.589 1.792 -3.058 ETKDGv3 3
2JU "O5'" 5.576 0.235 -0.978 ETKDGv3 4
2JU "C5'" 5.508 1.417 -0.213 ETKDGv3 5
2JU "C4'" 4.416 1.287 0.854 ETKDGv3 6
2JU "C3'" 4.720 0.198 1.880 ETKDGv3 7
2JU "C2'" 3.349 -0.291 2.279 ETKDGv3 8
2JU "C1'" 2.414 0.327 1.237 ETKDGv3 9
2JU "O4'" 3.184 0.976 0.250 ETKDGv3 10
2JU N1 1.552 -0.695 0.622 ETKDGv3 11
2JU C6 0.164 -0.768 1.010 ETKDGv3 12
2JU C5 -0.674 -1.690 0.503 ETKDGv3 13
2JU C4 -0.154 -2.703 -0.446 ETKDGv3 14
2JU O4 -0.891 -3.636 -0.862 ETKDGv3 15
2JU N3 1.211 -2.651 -0.860 ETKDGv3 16
2JU C2 2.078 -1.660 -0.311 ETKDGv3 17
2JU O2 3.294 -1.648 -0.639 ETKDGv3 18
2JU C5M -2.096 -1.695 0.921 ETKDGv3 19
2JU N22 -3.138 -1.992 -0.023 ETKDGv3 20
2JU C23 -4.546 -2.068 0.361 ETKDGv3 21
2JU C24 -5.089 -0.689 0.667 ETKDGv3 22
2JU C29 -5.292 0.333 -0.406 ETKDGv3 23
2JU C30 -5.049 0.087 -1.710 ETKDGv3 24
2JU C31 -5.265 1.142 -2.722 ETKDGv3 25
2JU C32 -5.705 2.350 -2.353 ETKDGv3 26
2JU C33 -5.982 2.633 -0.931 ETKDGv3 27
2JU C28 -5.788 1.679 -0.006 ETKDGv3 28
2JU C27 -6.064 1.937 1.418 ETKDGv3 29
2JU C26 -5.868 0.977 2.325 ETKDGv3 30
2JU C25 -5.368 -0.361 1.944 ETKDGv3 31
2JU O21 -2.391 -1.410 2.113 ETKDGv3 32
2JU "O3'" 5.403 0.720 2.990 ETKDGv3 33
2JU H2 7.311 1.767 -3.736 ETKDGv3 34
2JU H3 6.477 1.623 0.297 ETKDGv3 35
2JU H4 5.248 2.284 -0.862 ETKDGv3 36
2JU H5 4.315 2.270 1.370 ETKDGv3 37
2JU H6 5.291 -0.647 1.429 ETKDGv3 38
2JU H7 3.069 0.062 3.296 ETKDGv3 39
2JU H8 3.315 -1.403 2.270 ETKDGv3 40
2JU H9 1.789 1.104 1.735 ETKDGv3 41
2JU H10 -0.221 -0.038 1.714 ETKDGv3 42
2JU H11 1.583 -3.358 -1.534 ETKDGv3 43
2JU H12 -2.895 -2.132 -1.029 ETKDGv3 44
2JU H13 -4.655 -2.759 1.226 ETKDGv3 45
2JU H14 -5.135 -2.517 -0.466 ETKDGv3 46
2JU H15 -4.697 -0.875 -2.052 ETKDGv3 47
2JU H16 -5.064 0.935 -3.765 ETKDGv3 48
2JU H17 -5.862 3.121 -3.095 ETKDGv3 49
2JU H18 -6.343 3.615 -0.649 ETKDGv3 50
2JU H19 -6.430 2.906 1.738 ETKDGv3 51
2JU H20 -6.075 1.181 3.368 ETKDGv3 52
2JU H21 -5.220 -1.083 2.737 ETKDGv3 53
2JU H22 6.348 0.835 2.710 ETKDGv3 54
2JU O3P 6.832 -0.954 -3.131 ETKDGv3 55
2JU H1 5.929 -0.966 -3.537 ETKDGv3 56
#