data_CDP
#
_chem_comp.id CDP
_chem_comp.name "CYTIDINE-5'-DIPHOSPHATE"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C9 H15 N3 O11 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-15
_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 ?
_chem_comp.formula_weight 403.176
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code CDP
_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 1GX1
_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
CDP O3B O3B O 0 1 N N N N N N 0.185 16.288 82.535 -5.483 2.208 0.404 O3B CDP 1
CDP PB PB P 0 1 N N N N N N 0.420 15.321 81.281 -5.253 0.897 -0.502 PB CDP 2
CDP O1B O1B O 0 1 N N N N N N -0.116 14.080 81.799 -6.075 -0.216 0.023 O1B CDP 3
CDP O2B O2B O 0 1 N N N N N N -0.288 16.007 80.031 -5.684 1.213 -2.021 O2B CDP 4
CDP O3A O3A O 0 1 N N N N N N 2.024 15.123 81.262 -3.698 0.482 -0.461 O3A CDP 5
CDP PA PA P 0 1 N N R N N N 3.024 13.896 81.329 -2.780 -0.313 0.596 PA CDP 6
CDP O1A O1A O 0 1 N N N N N N 3.391 13.448 79.960 -3.496 -1.524 1.057 O1A CDP 7
CDP O2A O2A O 0 1 N N N N N N 2.722 12.756 82.304 -2.466 0.638 1.856 O2A CDP 8
CDP "O5'" "O5'" O 0 1 N N N N N N 4.269 14.707 81.891 -1.398 -0.743 -0.110 "O5'" CDP 9
CDP "C5'" "C5'" C 0 1 N N N N N N 4.129 15.349 83.154 -0.414 -1.554 0.535 "C5'" CDP 10
CDP "C4'" "C4'" C 0 1 N N R N N N 5.340 16.231 83.478 0.768 -1.770 -0.411 "C4'" CDP 11
CDP "O4'" "O4'" O 0 1 N N N N N N 6.503 15.443 83.614 1.444 -0.523 -0.642 "O4'" CDP 12
CDP "C3'" "C3'" C 0 1 N N S N N N 5.735 17.223 82.374 1.786 -2.731 0.234 "C3'" CDP 13
CDP "O3'" "O3'" O 0 1 N N N N N N 4.947 18.426 82.364 1.956 -3.896 -0.575 "O3'" CDP 14
CDP "C2'" "C2'" C 0 1 N N R N N N 7.206 17.489 82.632 3.099 -1.912 0.287 "C2'" CDP 15
CDP "O2'" "O2'" O 0 1 N N N N N N 7.260 18.457 83.672 4.222 -2.725 -0.060 "O2'" CDP 16
CDP "C1'" "C1'" C 0 1 N N R N N N 7.677 16.130 83.156 2.849 -0.826 -0.789 "C1'" CDP 17
CDP N1 N1 N 0 1 N N N N N N 8.374 15.275 82.163 3.663 0.362 -0.523 N1 CDP 18
CDP C2 C2 C 0 1 N N N N N N 9.725 15.035 82.419 3.505 1.038 0.630 C2 CDP 19
CDP O2 O2 O 0 1 N N N N N N 10.320 15.690 83.280 2.681 0.652 1.443 O2 CDP 20
CDP N3 N3 N 0 1 N N N N N N 10.412 14.046 81.777 4.232 2.121 0.898 N3 CDP 21
CDP C4 C4 C 0 1 N N N N N N 9.825 13.340 80.762 5.134 2.562 0.031 C4 CDP 22
CDP N4 N4 N 0 1 N N N N N N 10.573 12.448 80.117 5.880 3.681 0.319 N4 CDP 23
CDP C5 C5 C 0 1 N N N N N N 8.443 13.572 80.496 5.325 1.877 -1.186 C5 CDP 24
CDP C6 C6 C 0 1 N N N N N N 7.721 14.515 81.240 4.581 0.774 -1.442 C6 CDP 25
CDP "H5'1" "H5'1" H 0 0 N N N N N N 3.228 15.980 83.132 -0.068 -1.054 1.440 "H5'1" CDP 26
CDP "H5'2" "H5'2" H 0 0 N N N N N N 4.052 14.572 83.929 -0.852 -2.517 0.797 "H5'2" CDP 27
CDP "H4'" "H4'" H 0 1 N N N N N N 5.023 16.763 84.387 0.415 -2.181 -1.357 "H4'" CDP 28
CDP "H3'" "H3'" H 0 1 N N N N N N 5.548 16.808 81.373 1.466 -3.008 1.238 "H3'" CDP 29
CDP HA HA H 0 1 N N N N N N 4.773 18.699 83.257 2.587 -4.536 -0.216 HA CDP 30
CDP "H2'" "H2'" H 0 1 N N N N N N 7.796 17.851 81.777 3.237 -1.462 1.270 "H2'" CDP 31
CDP HB HB H 0 1 N N N N N N 7.272 18.017 84.514 4.365 -3.474 0.535 HB CDP 32
CDP "H1'" "H1'" H 0 1 N N N N N N 8.422 16.320 83.942 3.054 -1.218 -1.786 "H1'" CDP 33
CDP H4N1 H4N1 H 0 0 N N N N N N 10.029 12.005 79.405 5.747 4.150 1.158 H4N1 CDP 34
CDP H4N2 H4N2 H 0 0 N N N N N N 11.533 12.251 80.315 6.539 4.002 -0.317 H4N2 CDP 35
CDP H5 H5 H 0 1 N N N N N N 7.948 13.016 79.714 6.055 2.224 -1.903 H5 CDP 36
CDP H6 H6 H 0 1 N N N N N N 6.659 14.638 81.083 4.712 0.230 -2.365 H6 CDP 37
CDP HO1 HO1 H 0 1 N N N N N N 2.659 11.938 81.826 -1.997 1.452 1.628 HO1 CDP 38
CDP HO2 HO2 H 0 1 N N N N N N -1.208 16.144 80.223 -6.611 1.470 -2.121 HO2 CDP 39
CDP HO3 HO3 H 0 1 N N N N N N 0.138 15.770 83.330 -4.974 2.979 0.117 HO3 CDP 40
#
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
CDP O3B PB SING N N 1
CDP PB O1B DOUB N N 2
CDP PB O2B SING N N 3
CDP PB O3A SING N N 4
CDP O3A PA SING N N 5
CDP PA O1A DOUB N N 6
CDP PA O2A SING N N 7
CDP PA "O5'" SING N N 8
CDP "O5'" "C5'" SING N N 9
CDP "C5'" "C4'" SING N N 10
CDP "C5'" "H5'1" SING N N 11
CDP "C5'" "H5'2" SING N N 12
CDP "C4'" "O4'" SING N N 13
CDP "C4'" "C3'" SING N N 14
CDP "C4'" "H4'" SING N N 15
CDP "O4'" "C1'" SING N N 16
CDP "C3'" "O3'" SING N N 17
CDP "C3'" "C2'" SING N N 18
CDP "C3'" "H3'" SING N N 19
CDP "O3'" HA SING N N 20
CDP "C2'" "O2'" SING N N 21
CDP "C2'" "C1'" SING N N 22
CDP "C2'" "H2'" SING N N 23
CDP "O2'" HB SING N N 24
CDP "C1'" N1 SING N N 25
CDP "C1'" "H1'" SING N N 26
CDP N1 C2 SING N N 27
CDP N1 C6 SING N N 28
CDP C2 O2 DOUB N N 29
CDP C2 N3 SING N N 30
CDP N3 C4 DOUB N N 31
CDP C4 N4 SING N N 32
CDP C4 C5 SING N N 33
CDP N4 H4N1 SING N N 34
CDP N4 H4N2 SING N N 35
CDP C5 C6 DOUB N N 36
CDP C5 H5 SING N N 37
CDP C6 H6 SING N N 38
CDP HO1 O2A SING N N 39
CDP HO2 O2B SING N N 40
CDP HO3 O3B SING N N 41
#
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
CDP SMILES ACDLabs 10.04 O=P(O)(O)OP(=O)(O)OCC2OC(N1C(=O)N=C(N)C=C1)C(O)C2O
CDP SMILES_CANONICAL CACTVS 3.341 NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]2O
CDP SMILES CACTVS 3.341 NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]2O
CDP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@@](=O)(O)OP(=O)(O)O)O)O
CDP SMILES "OpenEye OEToolkits" 1.5.0 C1=CN(C(=O)N=C1N)C2C(C(C(O2)COP(=O)(O)OP(=O)(O)O)O)O
CDP InChI InChI 1.03 InChI=1S/C9H15N3O11P2/c10-5-1-2-12(9(15)11-5)8-7(14)6(13)4(22-8)3-21-25(19,20)23-24(16,17)18/h1-2,4,6-8,13-14H,3H2,(H,19,20)(H2,10,11,15)(H2,16,17,18)/t4-,6-,7-,8-/m1/s1
CDP InChIKey InChI 1.03 ZWIADYZPOWUWEW-XVFCMESISA-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
CDP "SYSTEMATIC NAME" ACDLabs 10.04 "cytidine 5'-(trihydrogen diphosphate)"
CDP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl phosphono 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
CDP 'Create component' 1999-07-15 RCSB
CDP 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id CDP
_pdbe_chem_comp_drugbank_details.drugbank_id DB04555
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name "Cytidine-5'-Diphosphate"
_pdbe_chem_comp_drugbank_details.description
'Cytidine 5'-(trihydrogen diphosphate). A cytosine nucleotide containing two phosphate groups esterified to the sugar moiety. Synonyms: CRPP; cytidine pyrophosphate. [PubChem]'
_pdbe_chem_comp_drugbank_details.cas_number 63-38-7
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id CDP
_pdbe_chem_comp_synonyms.name "Cytidine-5'-Diphosphate"
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id CDP
_pdbe_chem_comp_drugbank_classification.drugbank_id DB04555
_pdbe_chem_comp_drugbank_classification.parent 'Pyrimidine ribonucleoside diphosphates'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Pyrimidine 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 pyrimidine ribonucleoside diphosphates. These are pyrimidine ribonucleotides with diphosphate group  linked to the ribose moiety.'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
CDP DB04555 '2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase' 'Shigella flexneri' P62619 unknown 1
CDP DB04555 '3-deoxy-manno-octulosonate cytidylyltransferase' 'Escherichia coli' P42216 unknown 2
CDP DB04555 '2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase' 'Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)' Q8RQP5 unknown 3
CDP DB04555 'N-acylneuraminate cytidylyltransferase' 'Neisseria meningitidis' P0A0Z8 unknown 4
CDP DB04555 'Cytidylate kinase' 'Escherichia coli (strain K12)' P0A6I0 unknown 5
CDP DB04555 'CDP-paratose 2-epimerase' 'Salmonella typhi' P14169 unknown 6
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
CDP O3B O 14.202 -4.874 1
CDP PB P 12.710 -5.031 2
CDP O1B O 12.867 -6.523 3
CDP O2B O 12.553 -3.539 4
CDP O3A O 11.218 -5.188 5
CDP PA P 10.336 -3.974 6
CDP O1A O 11.550 -3.093 7
CDP O2A O 9.123 -4.856 8
CDP "O5'" O 9.455 -2.761 9
CDP "C5'" C 7.963 -2.917 10
CDP "C4'" C 7.081 -1.704 11
CDP "O4'" O 7.545 -0.277 12
CDP "C3'" C 5.581 -1.704 13
CDP "O3'" O 4.699 -2.917 14
CDP "C2'" C 5.118 -0.277 15
CDP "O2'" O 3.691 0.186 16
CDP "C1'" C 6.331 0.604 17
CDP N1 N 6.331 2.104 18
CDP C2 C 7.630 2.854 19
CDP O2 O 8.929 2.104 20
CDP N3 N 7.630 4.354 21
CDP C4 C 6.331 5.104 22
CDP N4 N 6.331 6.604 23
CDP C5 C 5.032 4.354 24
CDP C6 C 5.032 2.854 25
#
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
CDP O3B PB SINGLE NONE 1
CDP PB O1B DOUBLE NONE 2
CDP PB O2B SINGLE NONE 3
CDP PB O3A SINGLE NONE 4
CDP O3A PA SINGLE NONE 5
CDP PA O1A DOUBLE NONE 6
CDP PA O2A SINGLE BEGINWEDGE 7
CDP PA "O5'" SINGLE NONE 8
CDP "O5'" "C5'" SINGLE NONE 9
CDP "C4'" "C5'" SINGLE BEGINDASH 10
CDP "C4'" "O4'" SINGLE NONE 11
CDP "C4'" "C3'" SINGLE NONE 12
CDP "O4'" "C1'" SINGLE NONE 13
CDP "C3'" "O3'" SINGLE BEGINWEDGE 14
CDP "C3'" "C2'" SINGLE NONE 15
CDP "C2'" "O2'" SINGLE BEGINWEDGE 16
CDP "C2'" "C1'" SINGLE NONE 17
CDP "C1'" N1 SINGLE BEGINDASH 18
CDP N1 C2 SINGLE NONE 19
CDP N1 C6 SINGLE NONE 20
CDP C2 O2 DOUBLE NONE 21
CDP C2 N3 SINGLE NONE 22
CDP N3 C4 DOUBLE NONE 23
CDP C4 N4 SINGLE NONE 24
CDP C4 C5 SINGLE NONE 25
CDP C5 C6 DOUBLE NONE 26
#
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
CDP MurckoScaffold S1 scaffold 'O=c1ncccn1[C@H]1CCCO1' InChI=1S/C8H10N2O2/c11-8-9-4-2-5-10(8)7-3-1-6-12-7/h2,4-5,7H,1,3,6H2/t7-/m1/s1 AKXKPKRAUWTVBW-SSDOTTSWSA-N
CDP 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
CDP pyrimidine F2 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
CDP ribose F3 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
CDP "C4'" S1 1
CDP "O4'" S1 1
CDP "C3'" S1 1
CDP "C2'" S1 1
CDP "C1'" S1 1
CDP N1 S1 1
CDP C2 S1 1
CDP O2 S1 1
CDP N3 S1 1
CDP C4 S1 1
CDP C5 S1 1
CDP C6 S1 1
CDP O3B F1 1
CDP PB F1 1
CDP O1B F1 1
CDP O2B F1 1
CDP O3A F1 1
CDP O3A F1 2
CDP PA F1 2
CDP O1A F1 2
CDP O2A F1 2
CDP "O5'" F1 2
CDP C5 F2 1
CDP C4 F2 1
CDP N3 F2 1
CDP C2 F2 1
CDP N1 F2 1
CDP C6 F2 1
CDP "C2'" F3 1
CDP "C3'" F3 1
CDP "C4'" F3 1
CDP "O4'" F3 1
CDP "C1'" F3 1
CDP "C5'" F3 1
CDP "O5'" F3 1
CDP "O3'" F3 1
CDP "O2'" F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id CDP
_pdbe_chem_comp_rdkit_properties.exactmw 403.018
_pdbe_chem_comp_rdkit_properties.amw 403.177
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 14
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 7
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 12
_pdbe_chem_comp_rdkit_properties.NumHBD 6
_pdbe_chem_comp_rdkit_properties.NumHBA 14
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 25
_pdbe_chem_comp_rdkit_properties.NumAtoms 40
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 16
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.556
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_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 5
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 160.436
_pdbe_chem_comp_rdkit_properties.tpsa 223.890
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.810
_pdbe_chem_comp_rdkit_properties.CrippenMR 77.023
_pdbe_chem_comp_rdkit_properties.chi0v 13.016
_pdbe_chem_comp_rdkit_properties.chi1v 8.448
_pdbe_chem_comp_rdkit_properties.chi2v 4.046
_pdbe_chem_comp_rdkit_properties.chi3v 4.046
_pdbe_chem_comp_rdkit_properties.chi4v 2.608
_pdbe_chem_comp_rdkit_properties.chi0n 26.227
_pdbe_chem_comp_rdkit_properties.chi1n 12.463
_pdbe_chem_comp_rdkit_properties.chi2n 2.131
_pdbe_chem_comp_rdkit_properties.chi3n 2.131
_pdbe_chem_comp_rdkit_properties.chi4n 1.300
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.180
_pdbe_chem_comp_rdkit_properties.kappa1 7.823
_pdbe_chem_comp_rdkit_properties.kappa2 7.210
_pdbe_chem_comp_rdkit_properties.kappa3 5.151
_pdbe_chem_comp_rdkit_properties.Phi 2.256
#
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
CDP UniChem DrugBank DB04555
CDP UniChem 'KEGG LIGAND' C00112
CDP UniChem ChEBI 17239
CDP UniChem ZINC ZINC000008215624
CDP UniChem eMolecules 36553904
CDP UniChem fdasrs 1ZH821MXU5
CDP UniChem HMDB HMDB0001546
CDP UniChem 'PubChem TPHARMA' 14757224
CDP UniChem 'PubChem TPHARMA' 15079805
CDP UniChem NMRShiftDB 60021158
CDP UniChem ACTor 63-38-7
CDP UniChem Nikkaji J150.290E
CDP UniChem BindingDb 50194153
CDP UniChem MetaboLights MTBLC17239
CDP UniChem BRENDA 212
CDP UniChem BRENDA 35329
CDP UniChem BRENDA 48939
CDP UniChem ChemicalBook CB3875524
CDP UniChem 'Probes And Drugs' PD059214
CDP UniChem SureChEMBL SCHEMBL154172
CDP UniChem SureChEMBL SCHEMBL20609277
CDP UniChem PubChem 6132
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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
CDP O3B -5.361 2.887 -0.289 ETKDGv3 1
CDP PB -5.101 1.985 1.121 ETKDGv3 2
CDP O1B -5.299 2.888 2.316 ETKDGv3 3
CDP O2B -6.225 0.721 1.213 ETKDGv3 4
CDP O3A -3.507 1.386 1.155 ETKDGv3 5
CDP PA -3.341 0.263 -0.115 ETKDGv3 6
CDP O1A -3.715 0.899 -1.436 ETKDGv3 7
CDP O2A -4.326 -1.085 0.171 ETKDGv3 8
CDP "O5'" -1.709 -0.227 -0.166 ETKDGv3 9
CDP "C5'" -1.564 -1.203 -1.172 ETKDGv3 10
CDP "C4'" -0.107 -1.675 -1.237 ETKDGv3 11
CDP "O4'" 0.750 -0.577 -1.445 ETKDGv3 12
CDP "C3'" 0.344 -2.381 0.038 ETKDGv3 13
CDP "O3'" 0.060 -3.756 -0.004 ETKDGv3 14
CDP "C2'" 1.838 -2.108 0.058 ETKDGv3 15
CDP "O2'" 2.602 -3.234 -0.310 ETKDGv3 16
CDP "C1'" 2.015 -0.957 -0.948 ETKDGv3 17
CDP N1 2.680 0.196 -0.319 ETKDGv3 18
CDP C2 2.009 1.050 0.629 ETKDGv3 19
CDP O2 0.806 0.854 0.945 ETKDGv3 20
CDP N3 2.728 2.132 1.229 ETKDGv3 21
CDP C4 3.981 2.346 0.954 ETKDGv3 22
CDP N4 4.663 3.436 1.574 ETKDGv3 23
CDP C5 4.705 1.464 0.013 ETKDGv3 24
CDP C6 4.074 0.445 -0.579 ETKDGv3 25
CDP "H5'1" -1.827 -0.778 -2.168 ETKDGv3 26
CDP "H5'2" -2.212 -2.086 -0.972 ETKDGv3 27
CDP "H4'" -0.005 -2.370 -2.103 ETKDGv3 28
CDP "H3'" -0.116 -1.916 0.942 ETKDGv3 29
CDP HA -0.905 -3.852 0.206 ETKDGv3 30
CDP "H2'" 2.145 -1.802 1.082 ETKDGv3 31
CDP HB 2.317 -3.517 -1.219 ETKDGv3 32
CDP "H1'" 2.620 -1.299 -1.819 ETKDGv3 33
CDP H4N1 4.161 4.063 2.242 ETKDGv3 34
CDP H4N2 5.669 3.622 1.368 ETKDGv3 35
CDP H5 5.752 1.640 -0.196 ETKDGv3 36
CDP H6 4.625 -0.192 -1.259 ETKDGv3 37
CDP HO1 -4.019 -1.439 1.044 ETKDGv3 38
CDP HO2 -6.578 0.624 0.292 ETKDGv3 39
CDP HO3 -4.630 3.555 -0.300 ETKDGv3 40
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