data_GNP
#
_chem_comp.id GNP
_chem_comp.name "PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H17 N6 O13 P3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2011-06-04
_chem_comp.pdbx_ambiguous_flag N
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces GTN
_chem_comp.formula_weight 522.196
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code GNP
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1CTQ
_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
GNP PG PG P 0 1 N N N N N N 4.935 31.507 21.691 -1.231 -0.295 7.212 PG GNP 1
GNP O1G O1G O 0 1 N N N N N N 4.899 32.144 23.047 -1.759 1.078 7.063 O1G GNP 2
GNP O2G O2G O 0 1 N N N N N N 4.129 32.343 20.710 -2.158 -1.118 8.240 O2G GNP 3
GNP O3G O3G O 0 1 N N N N N N 4.556 30.076 21.650 0.274 -0.234 7.778 O3G GNP 4
GNP N3B N3B N 0 1 N N N N N N 6.611 31.682 21.302 -1.236 -1.064 5.714 N3B GNP 5
GNP PB PB P 0 1 N N R N N N 7.202 31.350 19.762 -0.252 -0.151 4.699 PB GNP 6
GNP O1B O1B O 0 1 N N N N N N 7.408 29.908 19.616 -0.795 1.221 4.589 O1B GNP 7
GNP O2B O2B O 0 1 N N N N N N 6.425 32.127 18.752 1.237 -0.091 5.307 O2B GNP 8
GNP O3A O3A O 0 1 N N N N N N 8.690 32.006 19.856 -0.209 -0.830 3.240 O3A GNP 9
GNP PA PA P 0 1 N N S N N N 9.197 33.390 19.367 0.744 0.089 2.326 PA GNP 10
GNP O1A O1A O 0 1 N N N N N N 9.236 33.433 17.890 0.185 1.458 2.252 O1A GNP 11
GNP O2A O2A O 0 1 N N N N N N 8.532 34.468 20.185 2.216 0.145 2.974 O2A GNP 12
GNP "O5'" O5* O 0 1 N N N N N N 10.648 33.354 19.815 0.832 -0.534 0.845 "O5'" GNP 13
GNP "C5'" C5* C 0 1 N N N N N N 11.013 33.228 21.198 1.688 0.322 0.086 "C5'" GNP 14
GNP "C4'" C4* C 0 1 N N R N N N 12.433 33.663 21.389 1.815 -0.217 -1.339 "C4'" GNP 15
GNP "O4'" O4* O 0 1 N N N N N N 13.401 32.943 20.714 0.524 -0.237 -1.986 "O4'" GNP 16
GNP "C3'" C3* C 0 1 N N S N N N 12.657 35.142 20.956 2.674 0.734 -2.202 "C3'" GNP 17
GNP "O3'" O3* O 0 1 N N N N N N 13.626 35.786 21.804 4.018 0.258 -2.285 "O3'" GNP 18
GNP "C2'" C2* C 0 1 N N R N N N 13.257 34.966 19.546 1.997 0.695 -3.592 "C2'" GNP 19
GNP "O2'" O2* O 0 1 N N N N N N 14.067 36.035 19.166 2.904 0.196 -4.577 "O2'" GNP 20
GNP "C1'" C1* C 0 1 N N R N N N 14.116 33.758 19.817 0.808 -0.272 -3.402 "C1'" GNP 21
GNP N9 N9 N 0 1 Y N N N N N 14.351 32.999 18.572 -0.352 0.188 -4.166 N9 GNP 22
GNP C8 C8 C 0 1 Y N N N N N 13.285 32.569 17.679 -1.315 1.051 -3.730 C8 GNP 23
GNP N7 N7 N 0 1 Y N N N N N 13.785 31.834 16.715 -2.196 1.240 -4.668 N7 GNP 24
GNP C5 C5 C 0 1 Y N N N N N 15.262 31.974 16.869 -1.853 0.512 -5.759 C5 GNP 25
GNP C6 C6 C 0 1 Y N N N N N 16.309 31.355 16.084 -2.423 0.330 -7.041 C6 GNP 26
GNP O6 O6 O 0 1 N N N N N N 16.242 30.767 15.067 -3.453 0.902 -7.354 O6 GNP 27
GNP N1 N1 N 0 1 Y N N N N N 17.523 31.709 16.581 -1.794 -0.489 -7.912 N1 GNP 28
GNP C2 C2 C 0 1 Y N N N N N 17.576 32.330 17.793 -0.646 -1.129 -7.549 C2 GNP 29
GNP N2 N2 N 0 1 N N N N N N 18.953 32.527 18.141 -0.033 -1.960 -8.453 N2 GNP 30
GNP N3 N3 N 0 1 Y N N N N N 16.717 32.788 18.612 -0.107 -0.968 -6.361 N3 GNP 31
GNP C4 C4 C 0 1 Y N N N N N 15.526 32.598 18.035 -0.670 -0.168 -5.449 C4 GNP 32
GNP HOG2 2HOG H 0 0 N N N N N N 4.151 31.939 19.850 -2.127 -0.645 9.083 HOG2 GNP 33
GNP HOG3 3HOG H 0 0 N N N N N N 4.578 29.672 20.790 0.579 -1.147 7.860 HOG3 GNP 34
GNP HNB3 3HNB H 0 0 N N N N N N 7.146 31.125 21.968 -2.175 -0.988 5.353 HNB3 GNP 35
GNP HOB2 2HOB H 0 0 N N N N N N 6.758 31.939 17.882 1.553 -1.004 5.362 HOB2 GNP 36
GNP HOA2 2HOA H 0 0 N N N N N N 8.842 35.314 19.885 2.543 -0.764 3.004 HOA2 GNP 37
GNP "H5'2" 2H5* H 0 0 N N N N N N 10.312 33.778 21.868 1.265 1.326 0.058 "H5'2" GNP 38
GNP "H5'1" 1H5* H 0 0 N N N N N N 10.833 32.198 21.586 2.673 0.356 0.551 "H5'1" GNP 39
GNP "H4'" H4* H 0 1 N N N N N N 12.560 33.493 22.483 2.251 -1.216 -1.329 "H4'" GNP 40
GNP "H3'" H3* H 0 1 N N N N N N 11.732 35.763 21.003 2.652 1.744 -1.793 "H3'" GNP 41
GNP "HO3'" *HO3 H 0 0 N N N N N N 13.762 36.688 21.539 4.505 0.889 -2.833 "HO3'" GNP 42
GNP "H2'" H2* H 0 1 N N N N N N 12.500 34.887 18.730 1.639 1.686 -3.871 "H2'" GNP 43
GNP "HO2'" *HO2 H 0 0 N N N N N N 14.436 35.926 18.297 3.651 0.810 -4.606 "HO2'" GNP 44
GNP "H1'" H1* H 0 1 N N N N N N 15.102 34.070 20.230 1.087 -1.281 -3.708 "H1'" GNP 45
GNP H8 H8 H 0 1 N N N N N N 12.203 32.779 17.728 -1.341 1.509 -2.752 H8 GNP 46
GNP HN1 HN1 H 0 1 N N N N N N 18.375 31.513 16.056 -2.166 -0.630 -8.797 HN1 GNP 47
GNP HN21 1HN2 H 0 0 N N N N N N 18.992 32.991 19.048 0.786 -2.419 -8.210 HN21 GNP 48
GNP HN22 2HN2 H 0 0 N N N N N N 19.471 33.029 17.420 -0.421 -2.092 -9.332 HN22 GNP 49
#
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
GNP PG O1G DOUB N N 1
GNP PG O2G SING N N 2
GNP PG O3G SING N N 3
GNP PG N3B SING N N 4
GNP O2G HOG2 SING N N 5
GNP O3G HOG3 SING N N 6
GNP N3B PB SING N N 7
GNP N3B HNB3 SING N N 8
GNP PB O1B DOUB N N 9
GNP PB O2B SING N N 10
GNP PB O3A SING N N 11
GNP O2B HOB2 SING N N 12
GNP O3A PA SING N N 13
GNP PA O1A DOUB N N 14
GNP PA O2A SING N N 15
GNP PA "O5'" SING N N 16
GNP O2A HOA2 SING N N 17
GNP "O5'" "C5'" SING N N 18
GNP "C5'" "C4'" SING N N 19
GNP "C5'" "H5'2" SING N N 20
GNP "C5'" "H5'1" SING N N 21
GNP "C4'" "O4'" SING N N 22
GNP "C4'" "C3'" SING N N 23
GNP "C4'" "H4'" SING N N 24
GNP "O4'" "C1'" SING N N 25
GNP "C3'" "O3'" SING N N 26
GNP "C3'" "C2'" SING N N 27
GNP "C3'" "H3'" SING N N 28
GNP "O3'" "HO3'" SING N N 29
GNP "C2'" "O2'" SING N N 30
GNP "C2'" "C1'" SING N N 31
GNP "C2'" "H2'" SING N N 32
GNP "O2'" "HO2'" SING N N 33
GNP "C1'" N9 SING N N 34
GNP "C1'" "H1'" SING N N 35
GNP N9 C8 SING Y N 36
GNP N9 C4 SING Y N 37
GNP C8 N7 DOUB Y N 38
GNP C8 H8 SING N N 39
GNP N7 C5 SING Y N 40
GNP C5 C6 SING Y N 41
GNP C5 C4 DOUB Y N 42
GNP C6 O6 DOUB N N 43
GNP C6 N1 SING Y N 44
GNP N1 C2 SING Y N 45
GNP N1 HN1 SING N N 46
GNP C2 N2 SING N N 47
GNP C2 N3 DOUB Y N 48
GNP N2 HN21 SING N N 49
GNP N2 HN22 SING N N 50
GNP N3 C4 SING Y N 51
#
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
GNP SMILES ACDLabs 10.04 O=P(O)(O)NP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
GNP SMILES_CANONICAL CACTVS 3.341 NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P@@](O)(=O)N[P](O)(O)=O)[C@@H](O)[C@H]3O
GNP SMILES CACTVS 3.341 NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)N[P](O)(O)=O)[CH](O)[CH]3O
GNP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@@](=O)(NP(=O)(O)O)O)O)O)N=C(NC2=O)N
GNP SMILES "OpenEye OEToolkits" 1.5.0 c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(NP(=O)(O)O)O)O)O)N=C(NC2=O)N
GNP InChI InChI 1.03 InChI=1S/C10H17N6O13P3/c11-10-13-7-4(8(19)14-10)12-2-16(7)9-6(18)5(17)3(28-9)1-27-32(25,26)29-31(23,24)15-30(20,21)22/h2-3,5-6,9,17-18H,1H2,(H,25,26)(H3,11,13,14,19)(H4,15,20,21,22,23,24)/t3-,5-,6-,9-/m1/s1
GNP InChIKey InChI 1.03 UQABYHGXWYXDTK-UUOKFMHZSA-N
#
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
GNP "SYSTEMATIC NAME" ACDLabs 10.04 "5'-O-[(S)-hydroxy{[(R)-hydroxy(phosphonoamino)phosphoryl]oxy}phosphoryl]guanosine"
GNP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[[[[(2R,3S,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-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
GNP 'Create component' 1999-07-08 RCSB
GNP 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id GNP
_pdbe_chem_comp_drugbank_details.drugbank_id DB02082
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name 'Phosphoaminophosphonic acid guanylate ester'
_pdbe_chem_comp_drugbank_details.description
'A non-hydrolyzable analog of GTP, in which the oxygen atom bridging the beta to the gamma phosphate is replaced by a nitrogen atom. It binds tightly to G-protein in the presence of Mg2+. The nucleotide is a potent stimulator of adenylate cyclase.'
_pdbe_chem_comp_drugbank_details.cas_number 34273-04-6
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
GNP "5'-guanylylimidodiphosphate" DrugBank ?
GNP GMP-PNP DrugBank ?
GNP Gpp(NH)p DrugBank ?
GNP "Guanosine 5'-[beta,gamma-imido]triphosphate" DrugBank ?
GNP 'Guanylyl imidodiphosphate' DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id GNP
_pdbe_chem_comp_drugbank_classification.drugbank_id DB02082
_pdbe_chem_comp_drugbank_classification.parent 'Purine ribonucleoside monophosphates'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Purine nucleotides'
_pdbe_chem_comp_drugbank_classification.superclass 'Nucleosides, nucleotides, and analogues'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as purine ribonucleoside monophosphates. These are nucleotides consisting of a purine base linked to a ribose to which one monophosphate group is attached.'
#
_pdbe_chem_comp_drugbank_targets.comp_id GNP
_pdbe_chem_comp_drugbank_targets.drugbank_id DB02082
_pdbe_chem_comp_drugbank_targets.name 'Ras-related protein Rab-8B'
_pdbe_chem_comp_drugbank_targets.organism Humans
_pdbe_chem_comp_drugbank_targets.uniprot_id Q92930
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
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
GNP PG P 19.986 3.710 1
GNP O1G O 21.201 4.589 2
GNP O2G O 20.865 2.495 3
GNP O3G O 19.106 4.925 4
GNP N3B N 18.771 2.830 5
GNP PB P 17.401 3.442 6
GNP O1B O 18.014 4.812 7
GNP O2B O 16.789 2.073 8
GNP O3A O 16.032 4.055 9
GNP PA P 14.817 3.175 10
GNP O1A O 15.697 1.960 11
GNP O2A O 13.938 4.391 12
GNP "O5'" O 13.602 2.296 13
GNP "C5'" C 12.233 2.908 14
GNP "C4'" C 11.018 2.029 15
GNP "O4'" O 11.015 0.529 16
GNP "C3'" C 9.592 2.495 17
GNP "O3'" O 9.131 3.922 18
GNP "C2'" C 8.708 1.283 19
GNP "O2'" O 7.208 1.285 20
GNP "C1'" C 9.588 0.068 21
GNP N9 N 9.122 -1.358 22
GNP C8 C 9.997 -2.565 23
GNP N7 N 9.122 -3.772 24
GNP C5 C 7.702 -3.315 25
GNP C6 C 6.404 -4.065 26
GNP O6 O 6.404 -5.565 27
GNP N1 N 5.104 -3.315 28
GNP C2 C 5.104 -1.815 29
GNP N2 N 3.805 -1.065 30
GNP N3 N 6.404 -1.065 31
GNP C4 C 7.702 -1.815 32
#
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
GNP PG O1G DOUBLE NONE 1
GNP PG O2G SINGLE NONE 2
GNP PG O3G SINGLE NONE 3
GNP PG N3B SINGLE NONE 4
GNP N3B PB SINGLE NONE 5
GNP PB O1B DOUBLE NONE 6
GNP PB O2B SINGLE BEGINDASH 7
GNP PB O3A SINGLE NONE 8
GNP O3A PA SINGLE NONE 9
GNP PA O1A DOUBLE NONE 10
GNP PA O2A SINGLE BEGINWEDGE 11
GNP PA "O5'" SINGLE NONE 12
GNP "O5'" "C5'" SINGLE NONE 13
GNP "C4'" "C5'" SINGLE BEGINWEDGE 14
GNP "C4'" "O4'" SINGLE NONE 15
GNP "C4'" "C3'" SINGLE NONE 16
GNP "O4'" "C1'" SINGLE NONE 17
GNP "C3'" "O3'" SINGLE BEGINDASH 18
GNP "C3'" "C2'" SINGLE NONE 19
GNP "C2'" "O2'" SINGLE BEGINDASH 20
GNP "C2'" "C1'" SINGLE NONE 21
GNP "C1'" N9 SINGLE BEGINWEDGE 22
GNP N9 C8 SINGLE NONE 23
GNP N9 C4 SINGLE NONE 24
GNP C8 N7 DOUBLE NONE 25
GNP N7 C5 SINGLE NONE 26
GNP C5 C6 SINGLE NONE 27
GNP C5 C4 DOUBLE NONE 28
GNP C6 O6 DOUBLE NONE 29
GNP C6 N1 SINGLE NONE 30
GNP N1 C2 SINGLE NONE 31
GNP C2 N2 SINGLE NONE 32
GNP C2 N3 DOUBLE NONE 33
GNP N3 C4 SINGLE NONE 34
#
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
GNP MurckoScaffold S1 scaffold 'O=c1[nH]cnc2c1ncn2[C@H]1CCCO1' InChI=1S/C9H10N4O2/c14-9-7-8(10-4-11-9)13(5-12-7)6-2-1-3-15-6/h4-6H,1-3H2,(H,10,11,14)/t6-/m1/s1 JBXHFRZBULGPSC-ZCFIWIBFSA-N
GNP imidazole F1 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
GNP phosphate F2 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-UHFFFAOYSA-N
GNP purine F3 fragment 'c1ncc2[nH]cnc2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
GNP pyrimidine F4 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
GNP 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
GNP "C4'" S1 1
GNP "O4'" S1 1
GNP "C3'" S1 1
GNP "C2'" S1 1
GNP "C1'" S1 1
GNP N9 S1 1
GNP C8 S1 1
GNP N7 S1 1
GNP C5 S1 1
GNP C6 S1 1
GNP O6 S1 1
GNP N1 S1 1
GNP C2 S1 1
GNP N3 S1 1
GNP C4 S1 1
GNP C5 F1 1
GNP C4 F1 1
GNP N9 F1 1
GNP C8 F1 1
GNP N7 F1 1
GNP O3A F2 1
GNP PA F2 1
GNP O1A F2 1
GNP O2A F2 1
GNP "O5'" F2 1
GNP N7 F3 1
GNP C8 F3 1
GNP N9 F3 1
GNP C4 F3 1
GNP C5 F3 1
GNP C6 F3 1
GNP N1 F3 1
GNP C2 F3 1
GNP N3 F3 1
GNP C5 F4 1
GNP C6 F4 1
GNP N1 F4 1
GNP C2 F4 1
GNP N3 F4 1
GNP C4 F4 1
GNP "C2'" F5 1
GNP "C3'" F5 1
GNP "C4'" F5 1
GNP "O4'" F5 1
GNP "C1'" F5 1
GNP "C5'" F5 1
GNP "O5'" F5 1
GNP "O3'" F5 1
GNP "O2'" F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id GNP
_pdbe_chem_comp_rdkit_properties.exactmw 522.007
_pdbe_chem_comp_rdkit_properties.amw 522.197
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 19
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 10
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 15
_pdbe_chem_comp_rdkit_properties.NumHBD 9
_pdbe_chem_comp_rdkit_properties.NumHBA 17
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 32
_pdbe_chem_comp_rdkit_properties.NumAtoms 49
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 22
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.500
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_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 6
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 200.392
_pdbe_chem_comp_rdkit_properties.tpsa 301.900
_pdbe_chem_comp_rdkit_properties.CrippenClogP -2.672
_pdbe_chem_comp_rdkit_properties.CrippenMR 97.430
_pdbe_chem_comp_rdkit_properties.chi0v 17.015
_pdbe_chem_comp_rdkit_properties.chi1v 11.638
_pdbe_chem_comp_rdkit_properties.chi2v 6.669
_pdbe_chem_comp_rdkit_properties.chi3v 6.669
_pdbe_chem_comp_rdkit_properties.chi4v 4.787
_pdbe_chem_comp_rdkit_properties.chi0n 31.332
_pdbe_chem_comp_rdkit_properties.chi1n 14.925
_pdbe_chem_comp_rdkit_properties.chi2n 2.976
_pdbe_chem_comp_rdkit_properties.chi3n 2.976
_pdbe_chem_comp_rdkit_properties.chi4n 1.950
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.560
_pdbe_chem_comp_rdkit_properties.kappa1 10.794
_pdbe_chem_comp_rdkit_properties.kappa2 8.659
_pdbe_chem_comp_rdkit_properties.kappa3 5.673
_pdbe_chem_comp_rdkit_properties.Phi 2.921
#
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
GNP UniChem ChEMBL CHEMBL1233085
GNP UniChem DrugBank DB02082
GNP UniChem PDBe GNP
GNP UniChem ChEBI 78408
GNP UniChem ZINC ZINC000037868676
GNP UniChem PubChem 135403657
GNP UniChem ACTor 34273-04-6
GNP UniChem BindingDb 81791
GNP UniChem BindingDb 85784
GNP UniChem 'EPA CompTox Dashboard' DTXSID20187842
GNP UniChem BRENDA 129950
GNP UniChem BRENDA 25063
GNP UniChem BRENDA 3344
GNP UniChem BRENDA 89989
GNP UniChem BRENDA 93574
GNP UniChem 'Probes And Drugs' PD060148
GNP UniChem Nikkaji J152.190J
GNP UniChem SureChEMBL SCHEMBL2351266
GNP UniChem 'PubChem TPHARMA' 15456573
#
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
GNP PG 2.708 2.052 1.919 ETKDGv3 1
GNP O1G 3.855 3.012 1.700 ETKDGv3 2
GNP O2G 1.330 2.631 1.123 ETKDGv3 3
GNP O3G 2.378 1.953 3.576 ETKDGv3 4
GNP N3B 3.139 0.454 1.324 ETKDGv3 5
GNP PB 3.513 0.551 -0.391 ETKDGv3 6
GNP O1B 4.810 1.305 -0.581 ETKDGv3 7
GNP O2B 3.707 -1.031 -0.971 ETKDGv3 8
GNP O3A 2.260 1.381 -1.196 ETKDGv3 9
GNP PA 2.072 0.704 -2.748 ETKDGv3 10
GNP O1A 1.222 1.638 -3.579 ETKDGv3 11
GNP O2A 3.576 0.522 -3.508 ETKDGv3 12
GNP "O5'" 1.292 -0.813 -2.667 ETKDGv3 13
GNP "C5'" 0.347 -0.777 -1.622 ETKDGv3 14
GNP "C4'" -0.593 -1.988 -1.728 ETKDGv3 15
GNP "O4'" -1.343 -2.104 -0.540 ETKDGv3 16
GNP "C3'" -1.580 -1.860 -2.889 ETKDGv3 17
GNP "O3'" -1.923 -3.124 -3.410 ETKDGv3 18
GNP "C2'" -2.759 -1.161 -2.239 ETKDGv3 19
GNP "O2'" -4.006 -1.592 -2.736 ETKDGv3 20
GNP "C1'" -2.574 -1.434 -0.734 ETKDGv3 21
GNP N9 -2.583 -0.183 0.030 ETKDGv3 22
GNP C8 -3.636 0.793 0.053 ETKDGv3 23
GNP N7 -3.605 1.577 1.092 ETKDGv3 24
GNP C5 -2.491 1.109 1.844 ETKDGv3 25
GNP C6 -2.021 1.551 3.151 ETKDGv3 26
GNP O6 -2.549 2.523 3.752 ETKDGv3 27
GNP N1 -0.926 0.823 3.727 ETKDGv3 28
GNP C2 -0.368 -0.305 3.013 ETKDGv3 29
GNP N2 0.707 -1.049 3.585 ETKDGv3 30
GNP N3 -0.845 -0.650 1.845 ETKDGv3 31
GNP C4 -1.926 0.090 1.256 ETKDGv3 32
GNP HOG2 0.645 1.929 1.260 ETKDGv3 33
GNP HOG3 3.158 1.479 3.961 ETKDGv3 34
GNP HNB3 2.286 -0.142 1.412 ETKDGv3 35
GNP HOB2 4.402 -1.431 -0.389 ETKDGv3 36
GNP HOA2 3.964 1.433 -3.520 ETKDGv3 37
GNP "H5'2" 0.874 -0.839 -0.645 ETKDGv3 38
GNP "H5'1" -0.263 0.157 -1.640 ETKDGv3 39
GNP "H4'" 0.027 -2.903 -1.849 ETKDGv3 40
GNP "H3'" -1.165 -1.244 -3.718 ETKDGv3 41
GNP "HO3'" -2.172 -3.717 -2.653 ETKDGv3 42
GNP "H2'" -2.667 -0.071 -2.445 ETKDGv3 43
GNP "HO2'" -4.171 -2.518 -2.420 ETKDGv3 44
GNP "H1'" -3.384 -2.088 -0.344 ETKDGv3 45
GNP H8 -4.400 0.867 -0.710 ETKDGv3 46
GNP HN1 -0.541 1.102 4.657 ETKDGv3 47
GNP HN21 1.115 -1.866 3.079 ETKDGv3 48
GNP HN22 1.104 -0.777 4.511 ETKDGv3 49
#