data_T93
#
_chem_comp.id T93
_chem_comp.name "[[(4-hexoxypyridin-2-yl)amino]-phosphono-methyl]phosphonic acid"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H22 N2 O7 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2017-10-03
_chem_comp.pdbx_modified_date 2018-09-21
_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 368.260
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code T93
_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 5YGI
_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
T93 O1 O1 O 0 1 N N N N N N -14.343 35.554 -10.384 -5.224 0.229 -0.177 O1 T93 1
T93 P2 P1 P 0 1 N N N N N N -15.372 35.559 -9.280 -4.352 -0.137 0.961 P2 T93 2
T93 O3 O2 O 0 1 N N N N N N -15.231 36.772 -8.377 -4.570 0.910 2.164 O3 T93 3
T93 O4 O3 O 0 1 N N N N N N -16.721 35.599 -9.930 -4.723 -1.620 1.466 O4 T93 4
T93 C5 C1 C 0 1 N N N N N N -15.175 34.011 -8.320 -2.609 -0.096 0.428 C5 T93 5
T93 P6 P2 P 0 1 N N N N N N -16.372 34.063 -6.912 -2.362 -1.283 -0.934 P6 T93 6
T93 O7 O4 O 0 1 N N N N N N -16.131 35.260 -6.029 -2.733 -2.765 -0.429 O7 T93 7
T93 O8 O5 O 0 1 N N N N N N -16.242 32.772 -6.119 -3.311 -0.884 -2.172 O8 T93 8
T93 O9 O6 O 0 1 N N N N N N -17.740 34.157 -7.538 -0.947 -1.249 -1.367 O9 T93 9
T93 N10 N1 N 0 1 N N N N N N -15.475 32.908 -9.240 -2.270 1.253 -0.032 N10 T93 10
T93 C11 C2 C 0 1 Y N N N N N -15.120 31.565 -8.877 -0.939 1.619 -0.193 C11 T93 11
T93 N12 N2 N 0 1 Y N N N N N -14.066 31.396 -8.042 -0.640 2.841 -0.609 N12 T93 12
T93 C13 C3 C 0 1 Y N N N N N -13.733 30.137 -7.679 0.610 3.232 -0.775 C13 T93 13
T93 C14 C4 C 0 1 Y N N N N N -14.444 29.050 -8.161 1.660 2.377 -0.520 C14 T93 14
T93 C15 C5 C 0 1 Y N N N N N -15.482 29.215 -9.010 1.391 1.081 -0.079 C15 T93 15
T93 O16 O7 O 0 1 N N N N N N -16.144 28.056 -9.466 2.401 0.212 0.182 O16 T93 16
T93 C17 C6 C 0 1 N N N N N N -17.298 28.166 -10.230 3.734 0.688 -0.015 C17 T93 17
T93 C18 C7 C 0 1 N N N N N N -17.804 26.754 -10.476 4.728 -0.423 0.328 C18 T93 18
T93 C19 C8 C 0 1 N N N N N N -19.123 26.796 -11.245 6.155 0.088 0.117 C19 T93 19
T93 C20 C9 C 0 1 N N N N N N -19.699 25.372 -11.251 7.150 -1.023 0.460 C20 T93 20
T93 C21 C10 C 0 1 N N N N N N -19.139 24.607 -12.430 8.577 -0.513 0.249 C21 T93 21
T93 C22 C11 C 0 1 N N N N N N -20.105 23.480 -12.746 9.572 -1.624 0.592 C22 T93 22
T93 C23 C12 C 0 1 Y N N N N N -15.837 30.470 -9.381 0.065 0.702 0.091 C23 T93 23
T93 H1 H1 H 0 1 N N N N N N -14.510 37.311 -8.680 -4.028 0.731 2.944 H1 T93 24
T93 H2 H2 H 0 1 N N N N N N -16.618 35.612 -10.874 -5.638 -1.716 1.765 H2 T93 25
T93 H051 H3 H 0 0 N N N N N N -14.155 33.978 -7.910 -1.966 -0.366 1.266 H051 T93 26
T93 H3 H4 H 0 1 N N N N N N -16.893 35.828 -6.049 -3.648 -2.861 -0.129 H3 T93 27
T93 H4 H5 H 0 1 N N N N N N -17.053 32.281 -6.177 -3.231 -1.473 -2.934 H4 T93 28
T93 H101 H6 H 0 0 N N N N N N -15.005 33.110 -10.099 -2.975 1.891 -0.225 H101 T93 29
T93 H131 H7 H 0 0 N N N N N N -12.904 29.977 -7.006 0.813 4.237 -1.116 H131 T93 30
T93 H141 H8 H 0 0 N N N N N N -14.164 28.054 -7.853 2.679 2.706 -0.659 H141 T93 31
T93 H171 H9 H 0 0 N N N N N N -17.072 28.658 -11.187 3.864 0.984 -1.056 H171 T93 32
T93 H172 H10 H 0 0 N N N N N N -18.056 28.750 -9.687 3.912 1.548 0.632 H172 T93 33
T93 H182 H11 H 0 0 N N N N N N -17.961 26.251 -9.511 4.598 -0.718 1.369 H182 T93 34
T93 H181 H12 H 0 0 N N N N N N -17.058 26.197 -11.063 4.551 -1.282 -0.319 H181 T93 35
T93 H192 H13 H 0 0 N N N N N N -18.946 27.134 -12.277 6.286 0.383 -0.924 H192 T93 36
T93 H191 H14 H 0 0 N N N N N N -19.825 27.483 -10.750 6.333 0.947 0.764 H191 T93 37
T93 H202 H15 H 0 0 N N N N N N -20.795 25.420 -11.332 7.020 -1.319 1.501 H202 T93 38
T93 H201 H16 H 0 0 N N N N N N -19.422 24.861 -10.317 6.972 -1.883 -0.187 H201 T93 39
T93 H212 H17 H 0 0 N N N N N N -18.152 24.194 -12.175 8.707 -0.218 -0.792 H212 T93 40
T93 H211 H18 H 0 0 N N N N N N -19.044 25.274 -13.299 8.755 0.346 0.896 H211 T93 41
T93 H223 H19 H 0 0 N N N N N N -19.727 22.901 -13.602 10.588 -1.261 0.442 H223 T93 42
T93 H221 H20 H 0 0 N N N N N N -20.198 22.821 -11.870 9.441 -1.920 1.633 H221 T93 43
T93 H222 H21 H 0 0 N N N N N N -21.090 23.901 -12.995 9.394 -2.483 -0.055 H222 T93 44
T93 H231 H22 H 0 0 N N N N N N -16.664 30.625 -10.058 -0.181 -0.293 0.430 H231 T93 45
#
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
T93 C22 C21 SING N N 1
T93 C21 C20 SING N N 2
T93 C20 C19 SING N N 3
T93 C19 C18 SING N N 4
T93 C18 C17 SING N N 5
T93 O1 P2 DOUB N N 6
T93 C17 O16 SING N N 7
T93 O4 P2 SING N N 8
T93 O16 C15 SING N N 9
T93 C23 C15 DOUB Y N 10
T93 C23 C11 SING Y N 11
T93 P2 O3 SING N N 12
T93 P2 C5 SING N N 13
T93 N10 C11 SING N N 14
T93 N10 C5 SING N N 15
T93 C15 C14 SING Y N 16
T93 C11 N12 DOUB Y N 17
T93 C5 P6 SING N N 18
T93 C14 C13 DOUB Y N 19
T93 N12 C13 SING Y N 20
T93 O9 P6 DOUB N N 21
T93 P6 O8 SING N N 22
T93 P6 O7 SING N N 23
T93 O3 H1 SING N N 24
T93 O4 H2 SING N N 25
T93 C5 H051 SING N N 26
T93 O7 H3 SING N N 27
T93 O8 H4 SING N N 28
T93 N10 H101 SING N N 29
T93 C13 H131 SING N N 30
T93 C14 H141 SING N N 31
T93 C17 H171 SING N N 32
T93 C17 H172 SING N N 33
T93 C18 H182 SING N N 34
T93 C18 H181 SING N N 35
T93 C19 H192 SING N N 36
T93 C19 H191 SING N N 37
T93 C20 H202 SING N N 38
T93 C20 H201 SING N N 39
T93 C21 H212 SING N N 40
T93 C21 H211 SING N N 41
T93 C22 H223 SING N N 42
T93 C22 H221 SING N N 43
T93 C22 H222 SING N N 44
T93 C23 H231 SING N N 45
#
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
T93 InChI InChI 1.03 InChI=1S/C12H22N2O7P2/c1-2-3-4-5-8-21-10-6-7-13-11(9-10)14-12(22(15,16)17)23(18,19)20/h6-7,9,12H,2-5,8H2,1H3,(H,13,14)(H2,15,16,17)(H2,18,19,20)
T93 InChIKey InChI 1.03 NXVHNJBPVOSZAP-UHFFFAOYSA-N
T93 SMILES_CANONICAL CACTVS 3.385 CCCCCCOc1ccnc(NC([P](O)(O)=O)[P](O)(O)=O)c1
T93 SMILES CACTVS 3.385 CCCCCCOc1ccnc(NC([P](O)(O)=O)[P](O)(O)=O)c1
T93 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 CCCCCCOc1ccnc(c1)NC(P(=O)(O)O)P(=O)(O)O
T93 SMILES "OpenEye OEToolkits" 2.0.6 CCCCCCOc1ccnc(c1)NC(P(=O)(O)O)P(=O)(O)O
#
_pdbx_chem_comp_identifier.comp_id T93
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.6
_pdbx_chem_comp_identifier.identifier "[[(4-hexoxypyridin-2-yl)amino]-phosphono-methyl]phosphonic acid"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
T93 'Create component' 2017-10-03 RCSB
T93 'Initial release' 2018-09-26 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
T93 O1 O 10.794 -7.268 1
T93 P2 P 10.794 -5.768 2
T93 O3 O 9.294 -5.768 3
T93 O4 O 12.294 -5.768 4
T93 C5 C 10.794 -4.268 5
T93 P6 P 12.093 -3.518 6
T93 O7 O 11.343 -2.219 7
T93 O8 O 12.843 -4.816 8
T93 O9 O 13.392 -2.768 9
T93 N10 N 9.495 -3.518 10
T93 C11 C 9.495 -2.018 11
T93 N12 N 10.794 -1.268 12
T93 C13 C 10.794 0.233 13
T93 C14 C 9.495 0.983 14
T93 C15 C 8.196 0.233 15
T93 O16 O 6.897 0.983 16
T93 C17 C 6.897 2.482 17
T93 C18 C 5.598 3.232 18
T93 C19 C 5.598 4.732 19
T93 C20 C 4.299 5.482 20
T93 C21 C 4.299 6.982 21
T93 C22 C 3.000 7.732 22
T93 C23 C 8.196 -1.268 23
#
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
T93 C22 C21 SINGLE NONE 1
T93 C21 C20 SINGLE NONE 2
T93 C20 C19 SINGLE NONE 3
T93 C19 C18 SINGLE NONE 4
T93 C18 C17 SINGLE NONE 5
T93 O1 P2 DOUBLE NONE 6
T93 C17 O16 SINGLE NONE 7
T93 O4 P2 SINGLE NONE 8
T93 O16 C15 SINGLE NONE 9
T93 C23 C15 SINGLE NONE 10
T93 C23 C11 DOUBLE NONE 11
T93 P2 O3 SINGLE NONE 12
T93 P2 C5 SINGLE NONE 13
T93 N10 C11 SINGLE NONE 14
T93 N10 C5 SINGLE NONE 15
T93 C15 C14 DOUBLE NONE 16
T93 C11 N12 SINGLE NONE 17
T93 C5 P6 SINGLE NONE 18
T93 C14 C13 SINGLE NONE 19
T93 N12 C13 DOUBLE NONE 20
T93 O9 P6 DOUBLE NONE 21
T93 P6 O8 SINGLE NONE 22
T93 P6 O7 SINGLE NONE 23
#
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
T93 MurckoScaffold S1 scaffold c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
T93 pyridine F1 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-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
T93 C11 S1 1
T93 N12 S1 1
T93 C13 S1 1
T93 C14 S1 1
T93 C15 S1 1
T93 C23 S1 1
T93 C11 F1 1
T93 C23 F1 1
T93 C15 F1 1
T93 C14 F1 1
T93 C13 F1 1
T93 N12 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id T93
_pdbe_chem_comp_rdkit_properties.exactmw 368.090
_pdbe_chem_comp_rdkit_properties.amw 368.263
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 9
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 5
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 15
_pdbe_chem_comp_rdkit_properties.NumHBD 5
_pdbe_chem_comp_rdkit_properties.NumHBA 9
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 23
_pdbe_chem_comp_rdkit_properties.NumAtoms 45
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 11
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.583
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 165.286
_pdbe_chem_comp_rdkit_properties.tpsa 149.210
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.249
_pdbe_chem_comp_rdkit_properties.CrippenMR 83.939
_pdbe_chem_comp_rdkit_properties.chi0v 12.435
_pdbe_chem_comp_rdkit_properties.chi1v 8.181
_pdbe_chem_comp_rdkit_properties.chi2v 4.293
_pdbe_chem_comp_rdkit_properties.chi3v 4.293
_pdbe_chem_comp_rdkit_properties.chi4v 2.563
_pdbe_chem_comp_rdkit_properties.chi0n 32.647
_pdbe_chem_comp_rdkit_properties.chi1n 15.676
_pdbe_chem_comp_rdkit_properties.chi2n 1.644
_pdbe_chem_comp_rdkit_properties.chi3n 1.644
_pdbe_chem_comp_rdkit_properties.chi4n 0.928
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.950
_pdbe_chem_comp_rdkit_properties.kappa1 5.035
_pdbe_chem_comp_rdkit_properties.kappa2 8.777
_pdbe_chem_comp_rdkit_properties.kappa3 7.437
_pdbe_chem_comp_rdkit_properties.Phi 1.922
#
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
T93 UniChem PDBe T93
T93 UniChem SureChEMBL SCHEMBL20377242
T93 UniChem PubChem 134817490
#
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
T93 O1 -4.628 -1.608 0.628 ETKDGv3 1
T93 P2 -5.191 -0.482 1.464 ETKDGv3 2
T93 O3 -4.476 -0.527 2.997 ETKDGv3 3
T93 O4 -6.862 -0.693 1.632 ETKDGv3 4
T93 C5 -4.858 1.148 0.703 ETKDGv3 5
T93 P6 -5.506 1.270 -1.005 ETKDGv3 6
T93 O7 -4.781 2.588 -1.780 ETKDGv3 7
T93 O8 -5.191 -0.133 -1.899 ETKDGv3 8
T93 O9 -7.001 1.496 -0.949 ETKDGv3 9
T93 N10 -3.436 1.505 0.781 ETKDGv3 10
T93 C11 -2.358 0.825 0.111 ETKDGv3 11
T93 N12 -2.618 -0.270 -0.784 ETKDGv3 12
T93 C13 -1.662 -0.896 -1.406 ETKDGv3 13
T93 C14 -0.259 -0.491 -1.206 ETKDGv3 14
T93 C15 0.023 0.529 -0.373 ETKDGv3 15
T93 O16 1.331 0.980 -0.127 ETKDGv3 16
T93 C17 2.529 0.388 -0.633 ETKDGv3 17
T93 C18 2.868 -0.892 0.144 ETKDGv3 18
T93 C19 4.013 -1.696 -0.498 ETKDGv3 19
T93 C20 5.360 -0.954 -0.578 ETKDGv3 20
T93 C21 5.930 -0.601 0.803 ETKDGv3 21
T93 C22 7.341 -0.031 0.685 ETKDGv3 22
T93 C23 -1.089 1.220 0.313 ETKDGv3 23
T93 H1 -4.913 0.206 3.500 ETKDGv3 24
T93 H2 -7.196 -0.841 0.712 ETKDGv3 25
T93 H051 -5.424 1.892 1.304 ETKDGv3 26
T93 H3 -4.979 3.365 -1.199 ETKDGv3 27
T93 H4 -5.921 -0.760 -1.664 ETKDGv3 28
T93 H101 -3.198 2.326 1.383 ETKDGv3 29
T93 H131 -1.900 -1.715 -2.071 ETKDGv3 30
T93 H141 0.513 -1.028 -1.737 ETKDGv3 31
T93 H171 3.350 1.121 -0.495 ETKDGv3 32
T93 H172 2.437 0.193 -1.723 ETKDGv3 33
T93 H182 3.114 -0.636 1.196 ETKDGv3 34
T93 H181 1.974 -1.548 0.177 ETKDGv3 35
T93 H192 3.710 -1.991 -1.526 ETKDGv3 36
T93 H191 4.154 -2.635 0.080 ETKDGv3 37
T93 H202 6.079 -1.620 -1.104 ETKDGv3 38
T93 H201 5.258 -0.036 -1.195 ETKDGv3 39
T93 H212 5.962 -1.509 1.442 ETKDGv3 40
T93 H211 5.288 0.160 1.296 ETKDGv3 41
T93 H223 8.024 -0.780 0.229 ETKDGv3 42
T93 H221 7.723 0.228 1.695 ETKDGv3 43
T93 H222 7.335 0.888 0.061 ETKDGv3 44
T93 H231 -0.867 2.043 0.981 ETKDGv3 45
#