data_VNP
#
_chem_comp.id VNP
_chem_comp.name
;3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-5-(2-{[HYDROXY(PHOSPHONOAMINO)PHOSPHORYL]OXY}ETHYL)-4-METHYL-1,3-THIAZOL-3-I
UM
;
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H20 N5 O6 P2 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms
;THIAMIN-PNP; [2-[3-[(4-AMINO-2-METHYL-PYRIMIDIN-5-YL)METHYL]-4-METHYL-1-THIA-3-AZON
IACYCLOPENTA-2,4-DIEN-5-YL]ETHOXY-HYDROXY-PHOSPHORYL]AMINOPHOSPHONIC ACID
;
_chem_comp.pdbx_formal_charge 1
_chem_comp.pdbx_initial_date 2006-03-14
_chem_comp.pdbx_modified_date 2020-06-17
_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 424.330
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code VNP
_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 2G9Z
_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
VNP O2G O2G O 0 1 N N N N N N 30.659 74.774 7.143 6.839 1.077 -0.553 O2G VNP 1
VNP PG PG P 0 1 N N N N N N 29.093 75.082 7.352 5.807 1.048 0.683 PG VNP 2
VNP O3G O3G O 0 1 N N N N N N 28.843 76.535 6.713 6.114 -0.108 1.555 O3G VNP 3
VNP O1G O1G O 0 1 N N N N N N 28.716 75.065 8.784 5.947 2.410 1.530 O1G VNP 4
VNP N3B N3B N 0 1 N N N N N N 28.252 73.992 6.489 4.235 0.909 0.099 N3B VNP 5
VNP PB PB P 0 1 N N S N N N 28.128 74.346 4.909 4.046 -0.505 -0.794 PB VNP 6
VNP O2B O2B O 0 1 N N N N N N 27.558 73.173 4.209 4.339 -1.674 0.066 O2B VNP 7
VNP O1B O1B O 0 1 N N N N N N 29.441 74.848 4.450 5.062 -0.491 -2.043 O1B VNP 8
VNP O1 O1 O 0 1 N N N N N N 27.077 75.566 4.858 2.533 -0.601 -1.333 O1 VNP 9
VNP C7 C7 C 0 1 N N N N N N 25.722 75.479 5.316 1.415 -0.842 -0.477 C7 VNP 10
VNP C12 C12 C 0 1 N N N N N N 24.924 76.488 4.489 0.131 -0.872 -1.309 C12 VNP 11
VNP C11 C11 C 0 1 Y N N N N N 23.457 76.702 4.877 -1.048 -1.126 -0.406 C11 VNP 12
VNP C10 C10 C 0 1 Y N N N N N 23.199 77.559 6.119 -1.782 -0.194 0.209 C10 VNP 13
VNP CM4 CM4 C 0 1 N N N N N N 24.136 78.688 6.555 -1.510 1.281 0.069 CM4 VNP 14
VNP S1 S1 S 0 1 Y N N N N N 22.453 75.235 5.281 -1.707 -2.704 0.020 S1 VNP 15
VNP C9 C9 C 0 1 Y N N N N N 21.450 76.128 6.402 -2.899 -1.954 0.989 C9 VNP 16
VNP N5 N5 N 1 1 Y N N N N N 22.099 77.224 6.801 -2.763 -0.671 0.948 N5 VNP 17
VNP C7A C7A C 0 1 N N N N N N 21.693 77.992 7.989 -3.662 0.216 1.690 C7A VNP 18
VNP C5A C5A C 0 1 Y N N N N N 20.198 77.893 8.307 -4.777 0.674 0.784 C5A VNP 19
VNP C6A C6A C 0 1 Y N N N N N 19.866 77.343 9.539 -4.692 1.875 0.108 C6A VNP 20
VNP N1A N1A N 0 1 Y N N N N N 18.612 77.295 9.948 -5.691 2.245 -0.681 N1A VNP 21
VNP C2A C2A C 0 1 Y N N N N N 17.620 77.774 9.185 -6.757 1.485 -0.827 C2A VNP 22
VNP CM2 CM2 C 0 1 N N N N N N 16.181 77.737 9.705 -7.867 1.949 -1.735 CM2 VNP 23
VNP N3A N3A N 0 1 Y N N N N N 17.889 78.306 7.985 -6.880 0.332 -0.202 N3A VNP 24
VNP C4A C4A C 0 1 Y N N N N N 19.149 78.376 7.530 -5.918 -0.110 0.603 C4A VNP 25
VNP N4A N4A N 0 1 N N N N N N 19.374 78.916 6.335 -6.049 -1.325 1.255 N4A VNP 26
VNP H2G H2G H 0 1 N N N N N N 30.849 74.713 6.214 6.696 1.810 -1.167 H2G VNP 27
VNP H1G H1G H 0 1 N N N N N N 29.501 75.061 9.319 6.829 2.556 1.898 H1G VNP 28
VNP H3B H3B H 0 1 N N N N N N 28.716 73.110 6.571 3.565 0.953 0.852 H3B VNP 29
VNP H1B H1B H 0 1 N N N N N N 29.427 74.956 3.506 4.928 0.250 -2.650 H1B VNP 30
VNP H71 H71 H 0 1 N N N N N N 25.329 74.462 5.168 1.543 -1.799 0.028 H71 VNP 31
VNP H72 H72 H 0 1 N N N N N N 25.650 75.699 6.391 1.347 -0.046 0.265 H72 VNP 32
VNP H121 H121 H 0 0 N N N N N N 25.429 77.460 4.592 0.003 0.085 -1.814 H121 VNP 33
VNP H122 H122 H 0 0 N N N N N N 24.897 76.071 3.471 0.199 -1.668 -2.051 H122 VNP 34
VNP HM41 HM41 H 0 0 N N N N N N 24.361 78.585 7.627 -2.074 1.676 -0.776 HM41 VNP 35
VNP HM42 HM42 H 0 0 N N N N N N 25.071 78.632 5.978 -1.814 1.795 0.981 HM42 VNP 36
VNP HM43 HM43 H 0 0 N N N N N N 23.650 79.658 6.374 -0.445 1.440 -0.099 HM43 VNP 37
VNP H9 H9 H 0 1 N N N N N N 20.460 75.838 6.721 -3.659 -2.477 1.550 H9 VNP 38
VNP H7A1 H7A1 H 0 0 N N N N N N 22.252 77.604 8.853 -4.082 -0.320 2.541 H7A1 VNP 39
VNP H7A2 H7A2 H 0 0 N N N N N N 21.909 79.050 7.779 -3.105 1.083 2.046 H7A2 VNP 40
VNP H6A H6A H 0 1 N N N N N N 20.647 76.948 10.172 -3.822 2.505 0.221 H6A VNP 41
VNP HM21 HM21 H 0 0 N N N N N N 16.188 77.728 10.805 -7.687 1.583 -2.746 HM21 VNP 42
VNP HM22 HM22 H 0 0 N N N N N N 15.640 78.626 9.349 -8.819 1.560 -1.372 HM22 VNP 43
VNP HM23 HM23 H 0 0 N N N N N N 15.681 76.830 9.335 -7.899 3.038 -1.743 HM23 VNP 44
VNP H4A1 H4A1 H 0 0 N N N N N N 19.430 79.910 6.423 -5.344 -1.638 1.843 H4A1 VNP 45
VNP H4A2 H4A2 H 0 0 N N N N N N 20.235 78.565 5.967 -6.845 -1.863 1.123 H4A2 VNP 46
#
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
VNP O2G PG SING N N 1
VNP O2G H2G SING N N 2
VNP PG O3G DOUB N N 3
VNP PG O1G SING N N 4
VNP PG N3B SING N N 5
VNP O1G H1G SING N N 6
VNP N3B PB SING N N 7
VNP N3B H3B SING N N 8
VNP PB O2B DOUB N N 9
VNP PB O1B SING N N 10
VNP PB O1 SING N N 11
VNP O1B H1B SING N N 12
VNP O1 C7 SING N N 13
VNP C7 C12 SING N N 14
VNP C7 H71 SING N N 15
VNP C7 H72 SING N N 16
VNP C12 C11 SING N N 17
VNP C12 H121 SING N N 18
VNP C12 H122 SING N N 19
VNP C11 C10 DOUB Y N 20
VNP C11 S1 SING Y N 21
VNP C10 CM4 SING N N 22
VNP C10 N5 SING Y N 23
VNP CM4 HM41 SING N N 24
VNP CM4 HM42 SING N N 25
VNP CM4 HM43 SING N N 26
VNP S1 C9 SING Y N 27
VNP C9 N5 DOUB Y N 28
VNP C9 H9 SING N N 29
VNP N5 C7A SING N N 30
VNP C7A C5A SING N N 31
VNP C7A H7A1 SING N N 32
VNP C7A H7A2 SING N N 33
VNP C5A C6A DOUB Y N 34
VNP C5A C4A SING Y N 35
VNP C6A N1A SING Y N 36
VNP C6A H6A SING N N 37
VNP N1A C2A DOUB Y N 38
VNP C2A CM2 SING N N 39
VNP C2A N3A SING Y N 40
VNP CM2 HM21 SING N N 41
VNP CM2 HM22 SING N N 42
VNP CM2 HM23 SING N N 43
VNP N3A C4A DOUB Y N 44
VNP C4A N4A SING N N 45
VNP N4A H4A1 SING N N 46
VNP N4A H4A2 SING N N 47
#
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
VNP SMILES ACDLabs 10.04 O=P(O)(O)NP(=O)(O)OCCc1sc[n+](c1C)Cc2c(nc(nc2)C)N
VNP SMILES_CANONICAL CACTVS 3.341 Cc1ncc(C[n+]2csc(CCO[P@](O)(=O)N[P](O)(O)=O)c2C)c(N)n1
VNP SMILES CACTVS 3.341 Cc1ncc(C[n+]2csc(CCO[P](O)(=O)N[P](O)(O)=O)c2C)c(N)n1
VNP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 Cc1c(sc[n+]1Cc2cnc(nc2N)C)CCO[P@](=O)(NP(=O)(O)O)O
VNP SMILES "OpenEye OEToolkits" 1.5.0 Cc1c(sc[n+]1Cc2cnc(nc2N)C)CCOP(=O)(NP(=O)(O)O)O
VNP InChI InChI 1.03 InChI=1S/C12H19N5O6P2S/c1-8-11(3-4-23-25(21,22)16-24(18,19)20)26-7-17(8)6-10-5-14-9(2)15-12(10)13/h5,7H,3-4,6H2,1-2H3,(H5-,13,14,15,16,18,19,20,21,22)/p+1
VNP InChIKey InChI 1.03 LWNISHVQCROCTL-UHFFFAOYSA-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
VNP "SYSTEMATIC NAME" ACDLabs 10.04 3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-5-(2-{[(S)-hydroxy(phosphonoamino)phosphoryl]oxy}ethyl)-4-methyl-1,3-thiazol-3-ium
VNP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[[2-[3-[(4-amino-2-methyl-pyrimidin-5-yl)methyl]-4-methyl-1,3-thiazol-3-ium-5-yl]ethoxy-hydroxy-phosphoryl]amino]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
VNP 'Create component' 2006-03-14 RCSB
VNP 'Modify descriptor' 2011-06-04 RCSB
VNP 'Modify synonyms' 2020-06-05 PDBE
#
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1 VNP THIAMIN-PNP ? ?
2 VNP "[2-[3-[(4-AMINO-2-METHYL-PYRIMIDIN-5-YL)METHYL]-4-METHYL-1-THIA-3-AZON IACYCLOPENTA-2,4-DIEN-5-YL]ETHOXY-HYDROXY-PHOSPHORYL]AMINOPHOSPHONIC ACID" ? ?
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
VNP THIAMIN-PNP wwPDB ?
VNP '[2-[3-[(4-AMINO-2-METHYL-PYRIMIDIN-5-YL)METHYL]-4-METHYL-1-THIA-3-AZON IACYCLOPENTA-2,4-DIEN-5-YL]ETHOXY-HYDROXY-PHOSPHORYL]AMINOPHOSPHONIC ACID' wwPDB ?
#
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
VNP O2G O 6.660 7.927 1
VNP PG P 5.778 6.713 2
VNP O3G O 4.565 7.595 3
VNP O1G O 6.992 5.832 4
VNP N3B N 4.897 5.500 5
VNP PB P 5.507 4.130 6
VNP O2B O 6.877 4.739 7
VNP O1B O 4.136 3.519 8
VNP O1 O 6.117 2.759 9
VNP C7 C 5.235 1.546 10
VNP C12 C 5.845 0.175 11
VNP C11 C 4.963 -1.038 12
VNP C10 C 5.427 -2.465 13
VNP CM4 C 6.854 -2.928 14
VNP S1 S 3.463 -1.038 15
VNP C9 C 3.000 -2.465 16
VNP N5 N 4.213 -3.346 17
VNP C7A C 4.213 -4.846 18
VNP C5A C 5.513 -5.596 19
VNP C6A C 6.812 -4.846 20
VNP N1A N 8.111 -5.596 21
VNP C2A C 8.111 -7.096 22
VNP CM2 C 9.410 -7.846 23
VNP N3A N 6.812 -7.846 24
VNP C4A C 5.513 -7.096 25
VNP N4A N 4.213 -7.846 26
#
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
VNP O2G PG SINGLE NONE 1
VNP PG O3G DOUBLE NONE 2
VNP PG O1G SINGLE NONE 3
VNP PG N3B SINGLE NONE 4
VNP N3B PB SINGLE NONE 5
VNP PB O2B DOUBLE NONE 6
VNP PB O1B SINGLE BEGINDASH 7
VNP PB O1 SINGLE NONE 8
VNP O1 C7 SINGLE NONE 9
VNP C7 C12 SINGLE NONE 10
VNP C12 C11 SINGLE NONE 11
VNP C11 C10 DOUBLE NONE 12
VNP C11 S1 SINGLE NONE 13
VNP C10 CM4 SINGLE NONE 14
VNP C10 N5 SINGLE NONE 15
VNP S1 C9 SINGLE NONE 16
VNP C9 N5 DOUBLE NONE 17
VNP N5 C7A SINGLE NONE 18
VNP C7A C5A SINGLE NONE 19
VNP C5A C6A DOUBLE NONE 20
VNP C5A C4A SINGLE NONE 21
VNP C6A N1A SINGLE NONE 22
VNP N1A C2A DOUBLE NONE 23
VNP C2A CM2 SINGLE NONE 24
VNP C2A N3A SINGLE NONE 25
VNP N3A C4A DOUBLE NONE 26
VNP C4A N4A SINGLE NONE 27
#
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
VNP MurckoScaffold S1 scaffold 'c1ncc(C[n+]2ccsc2)cn1' InChI=1S/C8H8N3S/c1-2-12-7-11(1)5-8-3-9-6-10-4-8/h1-4,6-7H,5H2/q+1 VOZNMBMJVMRVOB-UHFFFAOYSA-N
VNP pyrimidine F1 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
VNP thiazole F2 fragment c1cscn1 InChI=1S/C3H3NS/c1-2-5-3-4-1/h1-3H FZWLAAWBMGSTSO-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
VNP C11 S1 1
VNP C10 S1 1
VNP S1 S1 1
VNP C9 S1 1
VNP N5 S1 1
VNP C7A S1 1
VNP C5A S1 1
VNP C6A S1 1
VNP N1A S1 1
VNP C2A S1 1
VNP N3A S1 1
VNP C4A S1 1
VNP C5A F1 1
VNP C6A F1 1
VNP N1A F1 1
VNP C2A F1 1
VNP N3A F1 1
VNP C4A F1 1
VNP C11 F2 1
VNP C10 F2 1
VNP N5 F2 1
VNP C9 F2 1
VNP S1 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id VNP
_pdbe_chem_comp_rdkit_properties.exactmw 424.060
_pdbe_chem_comp_rdkit_properties.amw 424.336
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 11
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 14
_pdbe_chem_comp_rdkit_properties.NumHBD 5
_pdbe_chem_comp_rdkit_properties.NumHBA 10
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 26
_pdbe_chem_comp_rdkit_properties.NumAtoms 46
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 14
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.417
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_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 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 181.780
_pdbe_chem_comp_rdkit_properties.tpsa 171.770
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.185
_pdbe_chem_comp_rdkit_properties.CrippenMR 92.308
_pdbe_chem_comp_rdkit_properties.chi0v 14.594
_pdbe_chem_comp_rdkit_properties.chi1v 9.704
_pdbe_chem_comp_rdkit_properties.chi2v 5.003
_pdbe_chem_comp_rdkit_properties.chi3v 5.003
_pdbe_chem_comp_rdkit_properties.chi4v 3.237
_pdbe_chem_comp_rdkit_properties.chi0n 31.988
_pdbe_chem_comp_rdkit_properties.chi1n 15.463
_pdbe_chem_comp_rdkit_properties.chi2n 2.155
_pdbe_chem_comp_rdkit_properties.chi3n 2.155
_pdbe_chem_comp_rdkit_properties.chi4n 1.256
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.230
_pdbe_chem_comp_rdkit_properties.kappa1 6.681
_pdbe_chem_comp_rdkit_properties.kappa2 8.199
_pdbe_chem_comp_rdkit_properties.kappa3 6.185
_pdbe_chem_comp_rdkit_properties.Phi 2.107
#
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
VNP UniChem PDBe VNP
VNP UniChem ZINC ZINC000036470935
VNP UniChem PubChem 11840993
#
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
VNP O2G 6.627 2.602 1.892 ETKDGv3 1
VNP PG 6.606 1.094 1.127 ETKDGv3 2
VNP O3G 7.048 0.040 2.118 ETKDGv3 3
VNP O1G 7.673 1.134 -0.189 ETKDGv3 4
VNP N3B 4.968 0.755 0.583 ETKDGv3 5
VNP PB 4.961 -0.734 -0.354 ETKDGv3 6
VNP O2B 5.587 -1.849 0.454 ETKDGv3 7
VNP O1B 5.841 -0.523 -1.787 ETKDGv3 8
VNP O1 3.349 -1.168 -0.703 ETKDGv3 9
VNP C7 2.882 -0.365 -1.763 ETKDGv3 10
VNP C12 1.377 -0.573 -1.934 ETKDGv3 11
VNP C11 0.597 -0.200 -0.695 ETKDGv3 12
VNP C10 -0.604 -0.689 -0.341 ETKDGv3 13
VNP CM4 -1.303 -1.771 -1.123 ETKDGv3 14
VNP S1 1.063 1.087 0.449 ETKDGv3 15
VNP C9 -0.411 0.812 1.394 ETKDGv3 16
VNP N5 -1.153 -0.122 0.877 ETKDGv3 17
VNP C7A -2.430 -0.529 1.483 ETKDGv3 18
VNP C5A -3.634 0.027 0.744 ETKDGv3 19
VNP C6A -3.547 1.124 -0.033 ETKDGv3 20
VNP N1A -4.701 1.615 -0.730 ETKDGv3 21
VNP C2A -5.854 1.024 -0.620 ETKDGv3 22
VNP CM2 -7.047 1.576 -1.327 ETKDGv3 23
VNP N3A -5.996 -0.106 0.252 ETKDGv3 24
VNP C4A -4.982 -0.593 0.907 ETKDGv3 25
VNP N4A -5.201 -1.694 1.795 ETKDGv3 26
VNP H2G 6.372 3.247 1.186 ETKDGv3 27
VNP H1G 8.032 0.213 -0.262 ETKDGv3 28
VNP H3B 4.702 1.529 -0.065 ETKDGv3 29
VNP H1B 5.847 -1.416 -2.215 ETKDGv3 30
VNP H71 3.072 0.718 -1.588 ETKDGv3 31
VNP H72 3.378 -0.666 -2.713 ETKDGv3 32
VNP H121 1.204 -1.641 -2.188 ETKDGv3 33
VNP H122 1.016 0.048 -2.781 ETKDGv3 34
VNP HM41 -2.382 -1.821 -0.879 ETKDGv3 35
VNP HM42 -0.838 -2.752 -0.894 ETKDGv3 36
VNP HM43 -1.227 -1.572 -2.212 ETKDGv3 37
VNP H9 -0.671 1.356 2.294 ETKDGv3 38
VNP H7A1 -2.467 -1.638 1.491 ETKDGv3 39
VNP H7A2 -2.484 -0.199 2.544 ETKDGv3 40
VNP H6A -2.612 1.652 -0.162 ETKDGv3 41
VNP HM21 -7.802 0.776 -1.478 ETKDGv3 42
VNP HM22 -6.753 1.979 -2.319 ETKDGv3 43
VNP HM23 -7.494 2.389 -0.718 ETKDGv3 44
VNP H4A1 -6.146 -2.133 1.857 ETKDGv3 45
VNP H4A2 -4.462 -2.041 2.443 ETKDGv3 46
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