data_DJJ
#
_chem_comp.id DJJ
_chem_comp.name
"5'-O-[(R)-{[(R)-[(S)-chloro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]-2'-deoxycytidine"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H17 Cl N3 O12 P3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2017-10-26
_chem_comp.pdbx_modified_date 2018-06-15
_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 499.629
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code DJJ
_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 6BEM
_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
DJJ C4 C1 C 0 1 N N N N N N 9.389 7.658 10.912 -6.904 -2.624 0.483 C4 DJJ 1
DJJ N4 N1 N 0 1 N N N N N N 10.822 7.727 11.100 -7.697 -3.592 1.055 N4 DJJ 2
DJJ C5 C2 C 0 1 N N N N N N 8.575 7.232 11.954 -6.694 -2.612 -0.911 C5 DJJ 3
DJJ C6 C3 C 0 1 N N N N N N 7.199 7.165 11.712 -5.909 -1.648 -1.448 C6 DJJ 4
DJJ N3 N2 N 0 1 N N N N N N 8.864 7.992 9.749 -6.338 -1.693 1.239 N3 DJJ 5
DJJ C2 C4 C 0 1 N N N N N N 7.560 7.909 9.566 -5.569 -0.751 0.697 C2 DJJ 6
DJJ O2 O1 O 0 1 N N N N N N 7.099 8.218 8.512 -5.060 0.095 1.413 O2 DJJ 7
DJJ N1 N3 N 0 1 N N N N N N 6.737 7.525 10.528 -5.345 -0.716 -0.630 N1 DJJ 8
DJJ "C1'" C5 C 0 1 N N R N N N 5.315 7.423 10.226 -4.494 0.333 -1.198 "C1'" DJJ 9
DJJ "C2'" C6 C 0 1 N N N N N N 5.060 6.205 9.822 -5.109 1.725 -0.935 "C2'" DJJ 10
DJJ "C3'" C7 C 0 1 N N S N N N 4.493 5.464 11.043 -3.887 2.629 -0.659 "C3'" DJJ 11
DJJ "O3'" O2 O 0 1 N N N N N N 3.673 4.413 10.694 -3.806 3.673 -1.632 "O3'" DJJ 12
DJJ "O4'" O3 O 0 1 N N N N N N 4.464 7.624 11.555 -3.216 0.361 -0.526 "O4'" DJJ 13
DJJ "C4'" C8 C 0 1 N N R N N N 3.707 6.599 11.715 -2.678 1.676 -0.787 "C4'" DJJ 14
DJJ "C5'" C9 C 0 1 N N N N N N 3.530 6.350 13.242 -1.609 2.030 0.248 "C5'" DJJ 15
DJJ "O5'" O4 O 0 1 N N N N N N 4.798 6.205 13.816 -0.454 1.215 0.038 "O5'" DJJ 16
DJJ PA P1 P 0 1 N N N N N N 5.031 4.957 14.874 0.870 1.318 0.948 PA DJJ 17
DJJ O1A O5 O 0 1 N N N N N N 3.950 4.996 15.939 0.522 0.867 2.454 O1A DJJ 18
DJJ O2A O6 O 0 1 N N N N N N 6.410 5.074 15.455 1.358 2.715 0.952 O2A DJJ 19
DJJ O3A O7 O 0 1 N N N N N N 4.974 3.612 13.959 2.010 0.352 0.349 O3A DJJ 20
DJJ PB P2 P 0 1 N N N N N N 3.801 2.486 13.886 3.598 0.219 0.579 PB DJJ 21
DJJ O2B O8 O 0 1 N N N N N N 3.744 2.181 12.420 3.866 -0.083 2.003 O2B DJJ 22
DJJ O1B O9 O 0 1 N N N N N N 2.466 2.998 14.374 4.316 1.604 0.180 O1B DJJ 23
DJJ C3B C10 C 0 1 N N S N N N 4.359 0.975 14.781 4.253 -1.127 -0.461 C3B DJJ 24
DJJ CL1 CL1 CL 0 0 N N N N N N 6.131 1.084 14.914 3.926 -0.759 -2.196 CL1 DJJ 25
DJJ PG P3 P 0 1 N N N N N N 3.644 0.956 16.484 6.051 -1.277 -0.200 PG DJJ 26
DJJ O1G O10 O 0 1 N N N N N N 3.521 2.393 16.946 6.342 -1.606 1.349 O1G DJJ 27
DJJ O2G O11 O 0 1 N N N N N N 4.588 0.189 17.378 6.629 -2.466 -1.119 O2G DJJ 28
DJJ O3G O12 O 0 1 N N N N N N 2.316 0.286 16.392 6.711 -0.004 -0.567 O3G DJJ 29
DJJ H1 H1 H 0 1 N N N N N N 11.411 8.027 10.350 -8.112 -4.270 0.498 H1 DJJ 30
DJJ H2 H2 H 0 1 N N N N N N 11.224 7.475 11.980 -7.840 -3.598 2.014 H2 DJJ 31
DJJ H3 H3 H 0 1 N N N N N N 8.989 6.963 12.915 -7.151 -3.361 -1.541 H3 DJJ 32
DJJ H4 H4 H 0 1 N N N N N N 6.524 6.824 12.483 -5.733 -1.618 -2.513 H4 DJJ 33
DJJ H5 H5 H 0 1 N N N N N N 5.018 8.190 9.496 -4.357 0.172 -2.267 H5 DJJ 34
DJJ H6 H6 H 0 1 N N N N N N 4.322 6.219 9.007 -5.652 2.075 -1.814 H6 DJJ 35
DJJ H7 H7 H 0 1 N N N N N N 5.982 5.717 9.473 -5.766 1.695 -0.066 H7 DJJ 36
DJJ H8 H8 H 0 1 N N N N N N 5.317 5.145 11.698 -3.940 3.046 0.347 H8 DJJ 37
DJJ H9 H9 H 0 1 N N N N N N 3.766 3.714 11.330 -4.570 4.267 -1.636 H9 DJJ 38
DJJ H10 H10 H 0 1 N N N N N N 2.719 6.698 11.242 -2.263 1.723 -1.794 H10 DJJ 39
DJJ H11 H11 H 0 1 N N N N N N 3.010 7.205 13.700 -1.336 3.080 0.145 H11 DJJ 40
DJJ H12 H12 H 0 1 N N N N N N 2.942 5.434 13.403 -2.000 1.853 1.250 H12 DJJ 41
DJJ H13 H13 H 0 1 N N N N N N 4.351 5.089 16.795 0.195 -0.040 2.527 H13 DJJ 42
DJJ H14 H14 H 0 1 N N N N N N 1.852 3.025 13.649 4.182 1.865 -0.742 H14 DJJ 43
DJJ H15 H15 H 0 1 N N N N N N 4.058 0.071 14.231 3.767 -2.064 -0.191 H15 DJJ 44
DJJ H16 H16 H 0 1 N N N N N N 2.606 2.602 17.093 5.939 -2.428 1.659 H16 DJJ 45
DJJ H17 H17 H 0 1 N N N N N N 4.149 -0.583 17.715 7.582 -2.603 -1.031 H17 DJJ 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
DJJ O2 C2 DOUB N N 1
DJJ C2 N3 SING N N 2
DJJ C2 N1 SING N N 3
DJJ N3 C4 DOUB N N 4
DJJ "C2'" "C1'" SING N N 5
DJJ "C2'" "C3'" SING N N 6
DJJ "C1'" N1 SING N N 7
DJJ "C1'" "O4'" SING N N 8
DJJ N1 C6 SING N N 9
DJJ "O3'" "C3'" SING N N 10
DJJ C4 N4 SING N N 11
DJJ C4 C5 SING N N 12
DJJ "C3'" "C4'" SING N N 13
DJJ "O4'" "C4'" SING N N 14
DJJ C6 C5 DOUB N N 15
DJJ "C4'" "C5'" SING N N 16
DJJ O2B PB DOUB N N 17
DJJ "C5'" "O5'" SING N N 18
DJJ "O5'" PA SING N N 19
DJJ PB O3A SING N N 20
DJJ PB O1B SING N N 21
DJJ PB C3B SING N N 22
DJJ O3A PA SING N N 23
DJJ C3B CL1 SING N N 24
DJJ C3B PG SING N N 25
DJJ PA O2A DOUB N N 26
DJJ PA O1A SING N N 27
DJJ O3G PG DOUB N N 28
DJJ PG O1G SING N N 29
DJJ PG O2G SING N N 30
DJJ N4 H1 SING N N 31
DJJ N4 H2 SING N N 32
DJJ C5 H3 SING N N 33
DJJ C6 H4 SING N N 34
DJJ "C1'" H5 SING N N 35
DJJ "C2'" H6 SING N N 36
DJJ "C2'" H7 SING N N 37
DJJ "C3'" H8 SING N N 38
DJJ "O3'" H9 SING N N 39
DJJ "C4'" H10 SING N N 40
DJJ "C5'" H11 SING N N 41
DJJ "C5'" H12 SING N N 42
DJJ O1A H13 SING N N 43
DJJ O1B H14 SING N N 44
DJJ C3B H15 SING N N 45
DJJ O1G H16 SING N N 46
DJJ O2G H17 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
DJJ SMILES ACDLabs 12.01 C=1(N)C=CN(C(N=1)=O)C2OC(C(C2)O)COP(=O)(O)OP(O)(C(Cl)P(O)(O)=O)=O
DJJ InChI InChI 1.03 InChI=1S/C10H17ClN3O12P3/c11-9(27(17,18)19)28(20,21)26-29(22,23)24-4-6-5(15)3-8(25-6)14-2-1-7(12)13-10(14)16/h1-2,5-6,8-9,15H,3-4H2,(H,20,21)(H,22,23)(H2,12,13,16)(H2,17,18,19)/t5-,6+,8+,9-/m0/s1
DJJ InChIKey InChI 1.03 DDLGFLMLTFUPNR-LWIVVEGESA-N
DJJ SMILES_CANONICAL CACTVS 3.385 NC1=NC(=O)N(C=C1)[C@H]2C[C@H](O)[C@@H](CO[P](O)(=O)O[P](O)(=O)[C@@H](Cl)[P](O)(O)=O)O2
DJJ SMILES CACTVS 3.385 NC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CO[P](O)(=O)O[P](O)(=O)[CH](Cl)[P](O)(O)=O)O2
DJJ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 C1[C@@H]([C@H](O[C@H]1N2C=CC(=NC2=O)N)COP(=O)(O)OP(=O)([C@H](P(=O)(O)O)Cl)O)O
DJJ SMILES "OpenEye OEToolkits" 2.0.6 C1C(C(OC1N2C=CC(=NC2=O)N)COP(=O)(O)OP(=O)(C(P(=O)(O)O)Cl)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
DJJ "SYSTEMATIC NAME" ACDLabs 12.01 "5'-O-[(R)-{[(R)-[(S)-chloro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]-2'-deoxycytidine"
DJJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[(~{S})-[[[(2~{R},3~{S},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]-chloranyl-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
DJJ 'Create component' 2017-10-26 RCSB
DJJ 'Initial release' 2018-06-20 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
DJJ C4 C 5.557 5.220 1
DJJ N4 N 5.557 6.720 2
DJJ C5 C 4.258 4.470 3
DJJ C6 C 4.258 2.970 4
DJJ N3 N 6.856 4.470 5
DJJ C2 C 6.856 2.970 6
DJJ O2 O 8.155 2.220 7
DJJ N1 N 5.557 2.220 8
DJJ "C1'" C 5.557 0.720 9
DJJ "C2'" C 4.343 -0.161 10
DJJ "C3'" C 4.807 -1.588 11
DJJ "O3'" O 3.925 -2.801 12
DJJ "O4'" O 6.770 -0.161 13
DJJ "C4'" C 6.307 -1.588 14
DJJ "C5'" C 7.188 -2.801 15
DJJ "O5'" O 8.680 -2.645 16
DJJ PA P 9.562 -3.858 17
DJJ O1A O 8.348 -4.740 18
DJJ O2A O 10.775 -2.977 19
DJJ O3A O 10.444 -5.072 20
DJJ PB P 11.935 -4.915 21
DJJ O2B O 12.092 -6.407 22
DJJ O1B O 11.778 -3.423 23
DJJ C3B C 13.427 -4.758 24
DJJ CL1 Cl 14.037 -3.388 25
DJJ PG P 14.309 -5.972 26
DJJ O1G O 15.522 -5.090 27
DJJ O2G O 13.095 -6.853 28
DJJ O3G O 15.190 -7.185 29
#
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
DJJ O2 C2 DOUBLE NONE 1
DJJ C2 N3 SINGLE NONE 2
DJJ C2 N1 SINGLE NONE 3
DJJ N3 C4 DOUBLE NONE 4
DJJ "C2'" "C1'" SINGLE NONE 5
DJJ "C2'" "C3'" SINGLE NONE 6
DJJ "C1'" N1 SINGLE BEGINDASH 7
DJJ "C1'" "O4'" SINGLE NONE 8
DJJ N1 C6 SINGLE NONE 9
DJJ "C3'" "O3'" SINGLE BEGINWEDGE 10
DJJ C4 N4 SINGLE NONE 11
DJJ C4 C5 SINGLE NONE 12
DJJ "C3'" "C4'" SINGLE NONE 13
DJJ "O4'" "C4'" SINGLE NONE 14
DJJ C6 C5 DOUBLE NONE 15
DJJ "C4'" "C5'" SINGLE BEGINDASH 16
DJJ O2B PB DOUBLE NONE 17
DJJ "C5'" "O5'" SINGLE NONE 18
DJJ "O5'" PA SINGLE NONE 19
DJJ PB O3A SINGLE NONE 20
DJJ PB O1B SINGLE BEGINWEDGE 21
DJJ PB C3B SINGLE NONE 22
DJJ O3A PA SINGLE NONE 23
DJJ C3B CL1 SINGLE BEGINWEDGE 24
DJJ C3B PG SINGLE NONE 25
DJJ PA O2A DOUBLE NONE 26
DJJ PA O1A SINGLE BEGINWEDGE 27
DJJ O3G PG DOUBLE NONE 28
DJJ PG O1G SINGLE NONE 29
DJJ PG O2G SINGLE NONE 30
#
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
DJJ 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
DJJ deoxyribose F1 fragment 'OCC1OC[CH2]C1O' InChI=1S/C5H10O3/c6-3-5-4(7)1-2-8-5/h4-7H,1-3H2 NSMOSDAEGJTOIQ-UHFFFAOYSA-N
DJJ 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
DJJ pyrimidine F3 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
DJJ C4 S1 1
DJJ C5 S1 1
DJJ C6 S1 1
DJJ N3 S1 1
DJJ C2 S1 1
DJJ O2 S1 1
DJJ N1 S1 1
DJJ "C1'" S1 1
DJJ "C2'" S1 1
DJJ "C3'" S1 1
DJJ "O4'" S1 1
DJJ "C4'" S1 1
DJJ "C1'" F1 1
DJJ "C2'" F1 1
DJJ "C3'" F1 1
DJJ "O3'" F1 1
DJJ "C4'" F1 1
DJJ "O4'" F1 1
DJJ "C5'" F1 1
DJJ "O5'" F1 1
DJJ "O5'" F2 1
DJJ PA F2 1
DJJ O2A F2 1
DJJ O3A F2 1
DJJ O1A F2 1
DJJ C5 F3 1
DJJ C4 F3 1
DJJ N3 F3 1
DJJ C2 F3 1
DJJ N1 F3 1
DJJ C6 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id DJJ
_pdbe_chem_comp_rdkit_properties.exactmw 498.971
_pdbe_chem_comp_rdkit_properties.amw 499.630
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 15
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 7
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 14
_pdbe_chem_comp_rdkit_properties.NumHBD 6
_pdbe_chem_comp_rdkit_properties.NumHBA 15
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 29
_pdbe_chem_comp_rdkit_properties.NumAtoms 46
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 19
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.600
_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 6
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 191.290
_pdbe_chem_comp_rdkit_properties.tpsa 240.960
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.012
_pdbe_chem_comp_rdkit_properties.CrippenMR 95.100
_pdbe_chem_comp_rdkit_properties.chi0v 16.399
_pdbe_chem_comp_rdkit_properties.chi1v 11.248
_pdbe_chem_comp_rdkit_properties.chi2v 8.001
_pdbe_chem_comp_rdkit_properties.chi3v 8.001
_pdbe_chem_comp_rdkit_properties.chi4v 4.838
_pdbe_chem_comp_rdkit_properties.chi0n 29.960
_pdbe_chem_comp_rdkit_properties.chi1n 14.260
_pdbe_chem_comp_rdkit_properties.chi2n 2.410
_pdbe_chem_comp_rdkit_properties.chi3n 2.410
_pdbe_chem_comp_rdkit_properties.chi4n 1.380
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.660
_pdbe_chem_comp_rdkit_properties.kappa1 9.865
_pdbe_chem_comp_rdkit_properties.kappa2 8.833
_pdbe_chem_comp_rdkit_properties.kappa3 6.408
_pdbe_chem_comp_rdkit_properties.Phi 3.005
#
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
DJJ UniChem PDBe DJJ
DJJ UniChem PubChem 134163699
#
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
DJJ C4 6.783 -0.564 -0.829 ETKDGv3 1
DJJ N4 7.904 -1.142 -1.497 ETKDGv3 2
DJJ C5 6.993 0.286 0.362 ETKDGv3 3
DJJ C6 5.950 0.827 1.000 ETKDGv3 4
DJJ N3 5.583 -0.787 -1.278 ETKDGv3 5
DJJ C2 4.433 -0.226 -0.637 ETKDGv3 6
DJJ O2 3.288 -0.439 -1.117 ETKDGv3 7
DJJ N1 4.607 0.582 0.544 ETKDGv3 8
DJJ "C1'" 3.474 1.223 1.230 ETKDGv3 9
DJJ "C2'" 2.953 2.415 0.428 ETKDGv3 10
DJJ "C3'" 1.495 2.102 0.208 ETKDGv3 11
DJJ "O3'" 0.703 3.230 0.474 ETKDGv3 12
DJJ "O4'" 2.433 0.291 1.420 ETKDGv3 13
DJJ "C4'" 1.226 0.982 1.211 ETKDGv3 14
DJJ "C5'" 0.156 0.001 0.721 ETKDGv3 15
DJJ "O5'" -1.079 0.668 0.603 ETKDGv3 16
DJJ PA -2.224 -0.420 -0.039 ETKDGv3 17
DJJ O1A -2.266 -1.822 0.918 ETKDGv3 18
DJJ O2A -1.835 -0.770 -1.460 ETKDGv3 19
DJJ O3A -3.738 0.358 -0.037 ETKDGv3 20
DJJ PB -4.927 -0.807 -0.393 ETKDGv3 21
DJJ O2B -5.130 -1.707 0.807 ETKDGv3 22
DJJ O1B -4.487 -1.730 -1.745 ETKDGv3 23
DJJ C3B -6.481 0.072 -0.746 ETKDGv3 24
DJJ CL1 -6.235 1.186 -2.112 ETKDGv3 25
DJJ PG -7.812 -1.103 -1.149 ETKDGv3 26
DJJ O1G -8.006 -2.203 0.122 ETKDGv3 27
DJJ O2G -7.430 -1.937 -2.572 ETKDGv3 28
DJJ O3G -9.102 -0.340 -1.349 ETKDGv3 29
DJJ H1 7.766 -1.743 -2.341 ETKDGv3 30
DJJ H2 8.875 -0.974 -1.152 ETKDGv3 31
DJJ H3 7.998 0.477 0.720 ETKDGv3 32
DJJ H4 6.128 1.452 1.866 ETKDGv3 33
DJJ H5 3.795 1.577 2.236 ETKDGv3 34
DJJ H6 3.479 2.536 -0.545 ETKDGv3 35
DJJ H7 3.080 3.350 1.017 ETKDGv3 36
DJJ H8 1.354 1.751 -0.843 ETKDGv3 37
DJJ H9 -0.167 3.080 0.020 ETKDGv3 38
DJJ H10 0.896 1.414 2.184 ETKDGv3 39
DJJ H11 0.078 -0.819 1.470 ETKDGv3 40
DJJ H12 0.483 -0.428 -0.254 ETKDGv3 41
DJJ H13 -2.393 -2.570 0.281 ETKDGv3 42
DJJ H14 -4.919 -2.611 -1.610 ETKDGv3 43
DJJ H15 -6.775 0.659 0.149 ETKDGv3 44
DJJ H16 -8.724 -2.815 -0.178 ETKDGv3 45
DJJ H17 -8.184 -2.564 -2.709 ETKDGv3 46
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