data_R6D
#
_chem_comp.id R6D
_chem_comp.name 6-(6-aminopyrazin-2-yl)-N-{4-[4-(oxetan-3-yl)piperazin-1-yl]phenyl}imidazo[1,2-a]pyrazin-8-amine
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C23 H25 N9 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms GS-9876
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-02-03
_chem_comp.pdbx_modified_date 2021-03-01
_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 443.504
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code R6D
_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 6VOV
_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
R6D C02 C1 C 0 1 Y N N N N N -16.881 20.106 -7.007 3.552 0.626 -0.060 C02 R6D 1
R6D C03 C2 C 0 1 Y N N N N N -18.191 19.789 -7.139 4.891 0.405 -0.046 C03 R6D 2
R6D C05 C3 C 0 1 Y N N N N N -17.885 18.250 -5.350 4.503 -1.927 -0.031 C05 R6D 3
R6D C06 C4 C 0 1 Y N N N N N -16.487 18.621 -5.233 3.069 -1.641 -0.046 C06 R6D 4
R6D C07 C5 C 0 1 Y N N N N N -19.927 18.288 -6.141 6.637 -1.398 -0.016 C07 R6D 5
R6D C08 C6 C 0 1 Y N N N N N -19.799 17.389 -5.109 6.505 -2.745 -0.007 C08 R6D 6
R6D C11 C7 C 0 1 Y N N N N N -14.284 18.295 -4.067 0.778 -2.392 0.049 C11 R6D 7
R6D C12 C8 C 0 1 Y N N N N N -16.250 21.088 -7.901 3.051 2.021 -0.083 C12 R6D 8
R6D C14 C9 C 0 1 Y N N N N N -16.445 22.303 -9.877 3.457 4.284 -0.092 C14 R6D 9
R6D C15 C10 C 0 1 Y N N N N N -15.188 22.828 -9.658 2.086 4.525 -0.124 C15 R6D 10
R6D C17 C11 C 0 1 Y N N N N N -14.982 21.619 -7.700 1.680 2.271 -0.103 C17 R6D 11
R6D C18 C12 C 0 1 Y N N N N N -13.698 17.592 -3.025 -0.146 -3.209 -0.589 C18 R6D 12
R6D C19 C13 C 0 1 Y N N N N N -12.342 17.762 -2.723 -1.495 -2.934 -0.489 C19 R6D 13
R6D C20 C14 C 0 1 Y N N N N N -11.518 18.629 -3.457 -1.928 -1.840 0.248 C20 R6D 14
R6D C21 C15 C 0 1 Y N N N N N -12.124 19.319 -4.512 -1.004 -1.023 0.886 C21 R6D 15
R6D C22 C16 C 0 1 Y N N N N N -13.475 19.150 -4.821 0.345 -1.298 0.787 C22 R6D 16
R6D C24 C17 C 0 1 N N N N N N -9.674 20.178 -2.951 -3.530 -0.365 1.170 C24 R6D 17
R6D C25 C18 C 0 1 N N N N N N -8.141 20.245 -3.011 -5.037 -0.139 1.321 C25 R6D 18
R6D C27 C19 C 0 1 N N N N N N -7.903 17.875 -2.651 -5.408 -1.181 -0.832 C27 R6D 19
R6D C28 C20 C 0 1 N N N N N N -9.429 17.698 -2.532 -3.901 -1.407 -0.983 C28 R6D 20
R6D C29 C21 C 0 1 N N N N N N -6.211 19.528 -1.701 -7.077 0.308 0.096 C29 R6D 21
R6D C30 C22 C 0 1 N N N N N N -6.180 20.820 -0.874 -7.386 1.694 0.692 C30 R6D 22
R6D C32 C23 C 0 1 N N N N N N -5.788 18.848 -0.395 -7.698 0.854 -1.204 C32 R6D 23
R6D N01 N1 N 0 1 Y N N N N N -16.025 19.524 -6.074 2.667 -0.386 -0.060 N01 R6D 24
R6D N04 N2 N 0 1 Y N N N N N -18.691 18.852 -6.268 5.381 -0.872 -0.032 N04 R6D 25
R6D N09 N3 N 0 1 Y N N N N N -18.514 17.370 -4.625 5.205 -3.045 -0.015 N09 R6D 26
R6D N10 N4 N 0 1 N N N N N N -15.641 18.068 -4.310 2.146 -2.675 -0.047 N10 R6D 27
R6D N13 N5 N 0 1 Y N N N N N -16.966 21.428 -8.996 3.911 3.038 -0.078 N13 R6D 28
R6D N16 N6 N 0 1 Y N N N N N -14.448 22.491 -8.587 1.235 3.514 -0.123 N16 R6D 29
R6D N23 N7 N 0 1 N N N N N N -10.153 18.803 -3.171 -3.296 -1.560 0.348 N23 R6D 30
R6D N26 N8 N 0 1 N N N N N N -7.587 19.208 -2.131 -5.642 0.014 -0.010 N26 R6D 31
R6D N33 N9 N 0 1 N N N N N N -17.192 22.673 -10.980 4.351 5.348 -0.093 N33 R6D 32
R6D O31 O1 O 0 1 N N N N N N -6.111 20.048 0.362 -8.376 1.797 -0.351 O31 R6D 33
R6D H1 H1 H 0 1 N N N N N N -18.812 20.250 -7.892 5.574 1.242 -0.047 H1 R6D 34
R6D H2 H2 H 0 1 N N N N N N -20.811 18.501 -6.723 7.564 -0.844 -0.012 H2 R6D 35
R6D H3 H3 H 0 1 N N N N N N -20.604 16.778 -4.729 7.316 -3.458 0.006 H3 R6D 36
R6D H4 H4 H 0 1 N N N N N N -14.785 23.533 -10.370 1.717 5.540 -0.135 H4 R6D 37
R6D H5 H5 H 0 1 N N N N N N -14.416 21.333 -6.826 0.982 1.448 -0.103 H5 R6D 38
R6D H6 H6 H 0 1 N N N N N N -14.294 16.907 -2.441 0.190 -4.060 -1.163 H6 R6D 39
R6D H7 H7 H 0 1 N N N N N N -11.916 17.208 -1.899 -2.214 -3.569 -0.985 H7 R6D 40
R6D H8 H8 H 0 1 N N N N N N -11.531 20.001 -5.103 -1.341 -0.172 1.460 H8 R6D 41
R6D H9 H9 H 0 1 N N N N N N -13.901 19.688 -5.655 1.064 -0.663 1.284 H9 R6D 42
R6D H10 H10 H 0 1 N N N N N N -10.093 20.833 -3.729 -3.079 0.503 0.688 H10 R6D 43
R6D H11 H11 H 0 1 N N N N N N -10.010 20.522 -1.962 -3.084 -0.507 2.154 H11 R6D 44
R6D H12 H12 H 0 1 N N N N N N -7.804 20.072 -4.044 -5.484 -0.995 1.827 H12 R6D 45
R6D H13 H13 H 0 1 N N N N N N -7.801 21.236 -2.675 -5.213 0.763 1.906 H13 R6D 46
R6D H14 H14 H 0 1 N N N N N N -7.386 17.106 -2.059 -5.854 -1.039 -1.816 H14 R6D 47
R6D H15 H15 H 0 1 N N N N N N -7.594 17.797 -3.704 -5.859 -2.048 -0.350 H15 R6D 48
R6D H16 H16 H 0 1 N N N N N N -9.702 17.661 -1.467 -3.725 -2.309 -1.568 H16 R6D 49
R6D H17 H17 H 0 1 N N N N N N -9.718 16.754 -3.018 -3.454 -0.552 -1.490 H17 R6D 50
R6D H18 H18 H 0 1 N N N N N N -5.452 19.486 -2.496 -7.648 -0.503 0.549 H18 R6D 51
R6D H19 H19 H 0 1 N N N N N N -5.295 21.447 -1.059 -7.807 1.658 1.697 H19 R6D 52
R6D H20 H20 H 0 1 N N N N N N -7.089 21.432 -0.968 -6.568 2.408 0.596 H20 R6D 53
R6D H21 H21 H 0 1 N N N N N N -6.401 17.975 -0.129 -6.975 1.311 -1.880 H21 R6D 54
R6D H22 H22 H 0 1 N N N N N N -4.724 18.573 -0.361 -8.365 0.151 -1.704 H22 R6D 55
R6D H23 H23 H 0 1 N N N N N N -16.064 17.389 -3.710 2.448 -3.595 -0.113 H23 R6D 56
R6D H25 H25 H 0 1 N N N N N N -18.074 22.202 -10.959 4.019 6.260 -0.116 H25 R6D 57
R6D H26 H26 H 0 1 N N N N N N -17.342 23.662 -10.964 5.306 5.180 -0.071 H26 R6D 58
#
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
R6D N33 C14 SING N N 1
R6D C14 C15 DOUB Y N 2
R6D C14 N13 SING Y N 3
R6D C15 N16 SING Y N 4
R6D N13 C12 DOUB Y N 5
R6D N16 C17 DOUB Y N 6
R6D C12 C17 SING Y N 7
R6D C12 C02 SING N N 8
R6D C03 C02 DOUB Y N 9
R6D C03 N04 SING Y N 10
R6D C02 N01 SING Y N 11
R6D N04 C07 SING Y N 12
R6D N04 C05 SING Y N 13
R6D C07 C08 DOUB Y N 14
R6D N01 C06 DOUB Y N 15
R6D C05 C06 SING Y N 16
R6D C05 N09 DOUB Y N 17
R6D C06 N10 SING N N 18
R6D C08 N09 SING Y N 19
R6D C22 C21 DOUB Y N 20
R6D C22 C11 SING Y N 21
R6D C21 C20 SING Y N 22
R6D N10 C11 SING N N 23
R6D C11 C18 DOUB Y N 24
R6D C20 N23 SING N N 25
R6D C20 C19 DOUB Y N 26
R6D N23 C24 SING N N 27
R6D N23 C28 SING N N 28
R6D C18 C19 SING Y N 29
R6D C25 C24 SING N N 30
R6D C25 N26 SING N N 31
R6D C27 C28 SING N N 32
R6D C27 N26 SING N N 33
R6D N26 C29 SING N N 34
R6D C29 C30 SING N N 35
R6D C29 C32 SING N N 36
R6D C30 O31 SING N N 37
R6D C32 O31 SING N N 38
R6D C03 H1 SING N N 39
R6D C07 H2 SING N N 40
R6D C08 H3 SING N N 41
R6D C15 H4 SING N N 42
R6D C17 H5 SING N N 43
R6D C18 H6 SING N N 44
R6D C19 H7 SING N N 45
R6D C21 H8 SING N N 46
R6D C22 H9 SING N N 47
R6D C24 H10 SING N N 48
R6D C24 H11 SING N N 49
R6D C25 H12 SING N N 50
R6D C25 H13 SING N N 51
R6D C27 H14 SING N N 52
R6D C27 H15 SING N N 53
R6D C28 H16 SING N N 54
R6D C28 H17 SING N N 55
R6D C29 H18 SING N N 56
R6D C30 H19 SING N N 57
R6D C30 H20 SING N N 58
R6D C32 H21 SING N N 59
R6D C32 H22 SING N N 60
R6D N10 H23 SING N N 61
R6D N33 H25 SING N N 62
R6D N33 H26 SING N N 63
#
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
R6D SMILES ACDLabs 12.01 c1(nc(c2nccn2c1)Nc5ccc(N3CCN(CC3)C4COC4)cc5)c6cncc(n6)N
R6D InChI InChI 1.03 InChI=1S/C23H25N9O/c24-21-12-25-11-19(28-21)20-13-32-6-5-26-23(32)22(29-20)27-16-1-3-17(4-2-16)30-7-9-31(10-8-30)18-14-33-15-18/h1-6,11-13,18H,7-10,14-15H2,(H2,24,28)(H,27,29)
R6D InChIKey InChI 1.03 XCIGZBVOUQVIPI-UHFFFAOYSA-N
R6D SMILES_CANONICAL CACTVS 3.385 Nc1cncc(n1)c2cn3ccnc3c(Nc4ccc(cc4)N5CCN(CC5)C6COC6)n2
R6D SMILES CACTVS 3.385 Nc1cncc(n1)c2cn3ccnc3c(Nc4ccc(cc4)N5CCN(CC5)C6COC6)n2
R6D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1cc(ccc1Nc2c3nccn3cc(n2)c4cncc(n4)N)N5CCN(CC5)C6COC6
R6D SMILES "OpenEye OEToolkits" 2.0.7 c1cc(ccc1Nc2c3nccn3cc(n2)c4cncc(n4)N)N5CCN(CC5)C6COC6
#
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
R6D "SYSTEMATIC NAME" ACDLabs 12.01 6-(6-aminopyrazin-2-yl)-N-{4-[4-(oxetan-3-yl)piperazin-1-yl]phenyl}imidazo[1,2-a]pyrazin-8-amine
R6D "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 6-(6-azanylpyrazin-2-yl)-~{N}-[4-[4-(oxetan-3-yl)piperazin-1-yl]phenyl]imidazo[1,2-a]pyrazin-8-amine
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
R6D 'Create component' 2020-02-03 RCSB
R6D 'Initial release' 2020-03-11 RCSB
R6D 'Modify synonyms' 2021-03-01 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id R6D
_pdbx_chem_comp_synonyms.name GS-9876
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_details.comp_id R6D
_pdbe_chem_comp_drugbank_details.drugbank_id DB14770
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Lanraplenib
_pdbe_chem_comp_drugbank_details.description
'Lanraplenib is under investigation in clinical trial NCT03285711 (Safety and Efficacy of Filgotinib and Lanraplenib in Adults With Lupus Membranous Nephropathy (LMN)).'
_pdbe_chem_comp_drugbank_details.cas_number 1800046-95-0
_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
R6D GS-9876 wwPDB ?
R6D Lanraplenib DrugBank ?
#
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
R6D C02 C 12.631 3.724 1
R6D C03 C 13.930 4.474 2
R6D C05 C 15.229 2.224 3
R6D C06 C 13.930 1.474 4
R6D C07 C 16.649 4.181 5
R6D C08 C 17.524 2.974 6
R6D C11 C 12.631 -0.775 7
R6D C12 C 11.332 4.474 8
R6D C14 C 8.734 4.474 9
R6D C15 C 8.734 5.974 10
R6D C17 C 11.332 5.974 11
R6D C18 C 12.631 -2.276 12
R6D C19 C 11.332 -3.026 13
R6D C20 C 10.033 -2.276 14
R6D C21 C 10.033 -0.775 15
R6D C22 C 11.332 -0.025 16
R6D C24 C 8.734 -4.526 17
R6D C25 C 7.435 -5.276 18
R6D C27 C 6.136 -3.026 19
R6D C28 C 7.435 -2.276 20
R6D C29 C 4.837 -5.276 21
R6D C30 C 3.388 -4.887 22
R6D C32 C 4.449 -6.724 23
R6D N01 N 12.631 2.224 24
R6D N04 N 15.229 3.724 25
R6D N09 N 16.649 1.767 26
R6D N10 N 13.930 -0.025 27
R6D N13 N 10.033 3.724 28
R6D N16 N 10.033 6.724 29
R6D N23 N 8.734 -3.026 30
R6D N26 N 6.136 -4.526 31
R6D N33 N 7.435 3.724 32
R6D O31 O 3.000 -6.336 33
#
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
R6D N33 C14 SINGLE NONE 1
R6D C14 C15 DOUBLE NONE 2
R6D C14 N13 SINGLE NONE 3
R6D C15 N16 SINGLE NONE 4
R6D N13 C12 DOUBLE NONE 5
R6D N16 C17 DOUBLE NONE 6
R6D C12 C17 SINGLE NONE 7
R6D C12 C02 SINGLE NONE 8
R6D C03 C02 DOUBLE NONE 9
R6D C03 N04 SINGLE NONE 10
R6D C02 N01 SINGLE NONE 11
R6D N04 C07 SINGLE NONE 12
R6D N04 C05 SINGLE NONE 13
R6D C07 C08 DOUBLE NONE 14
R6D N01 C06 DOUBLE NONE 15
R6D C05 C06 SINGLE NONE 16
R6D C05 N09 DOUBLE NONE 17
R6D C06 N10 SINGLE NONE 18
R6D C08 N09 SINGLE NONE 19
R6D C22 C21 DOUBLE NONE 20
R6D C22 C11 SINGLE NONE 21
R6D C21 C20 SINGLE NONE 22
R6D N10 C11 SINGLE NONE 23
R6D C11 C18 DOUBLE NONE 24
R6D C20 N23 SINGLE NONE 25
R6D C20 C19 DOUBLE NONE 26
R6D N23 C24 SINGLE NONE 27
R6D N23 C28 SINGLE NONE 28
R6D C18 C19 SINGLE NONE 29
R6D C25 C24 SINGLE NONE 30
R6D C25 N26 SINGLE NONE 31
R6D C27 C28 SINGLE NONE 32
R6D C27 N26 SINGLE NONE 33
R6D N26 C29 SINGLE NONE 34
R6D C29 C30 SINGLE NONE 35
R6D C29 C32 SINGLE NONE 36
R6D C30 O31 SINGLE NONE 37
R6D C32 O31 SINGLE NONE 38
#
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
R6D MurckoScaffold S1 scaffold c1cnc(-c2cn3ccnc3c(Nc3ccc(N4CCN(C5COC5)CC4)cc3)n2)cn1 InChI=1S/C23H24N8O/c1-3-18(29-9-11-30(12-10-29)19-15-32-16-19)4-2-17(1)27-22-23-26-7-8-31(23)14-21(28-22)20-13-24-5-6-25-20/h1-8,13-14,19H,9-12,15-16H2,(H,27,28) MRWKWVDJGOJXFI-UHFFFAOYSA-N
R6D imidazole F1 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
R6D phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
R6D piperazine F3 fragment C1CNCCN1 InChI=1S/C4H10N2/c1-2-6-4-3-5-1/h5-6H,1-4H2 GLUUGHFHXGJENI-UHFFFAOYSA-N
R6D pyrazine F4 fragment c1cnccn1 InChI=1S/C4H4N2/c1-2-6-4-3-5-1/h1-4H KYQCOXFCLRTKLS-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
R6D C02 S1 1
R6D C03 S1 1
R6D C05 S1 1
R6D C06 S1 1
R6D C07 S1 1
R6D C08 S1 1
R6D C11 S1 1
R6D C12 S1 1
R6D C14 S1 1
R6D C15 S1 1
R6D C17 S1 1
R6D C18 S1 1
R6D C19 S1 1
R6D C20 S1 1
R6D C21 S1 1
R6D C22 S1 1
R6D C24 S1 1
R6D C25 S1 1
R6D C27 S1 1
R6D C28 S1 1
R6D C29 S1 1
R6D C30 S1 1
R6D C32 S1 1
R6D N01 S1 1
R6D N04 S1 1
R6D N09 S1 1
R6D N10 S1 1
R6D N13 S1 1
R6D N16 S1 1
R6D N23 S1 1
R6D N26 S1 1
R6D O31 S1 1
R6D C07 F1 1
R6D C08 F1 1
R6D N09 F1 1
R6D C05 F1 1
R6D N04 F1 1
R6D C11 F2 1
R6D C22 F2 1
R6D C21 F2 1
R6D C20 F2 1
R6D C19 F2 1
R6D C18 F2 1
R6D N23 F3 1
R6D C24 F3 1
R6D C25 F3 1
R6D N26 F3 1
R6D C27 F3 1
R6D C28 F3 1
R6D C02 F4 1
R6D C03 F4 1
R6D N04 F4 1
R6D C05 F4 1
R6D C06 F4 1
R6D N01 F4 1
R6D C12 F4 2
R6D C17 F4 2
R6D N16 F4 2
R6D C15 F4 2
R6D C14 F4 2
R6D N13 F4 2
#
_pdbe_chem_comp_rdkit_properties.comp_id R6D
_pdbe_chem_comp_rdkit_properties.exactmw 443.218
_pdbe_chem_comp_rdkit_properties.amw 443.515
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 10
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 10
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 33
_pdbe_chem_comp_rdkit_properties.NumAtoms 58
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 10
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.304
_pdbe_chem_comp_rdkit_properties.NumRings 6
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 4
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 5
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 2
_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 225.907
_pdbe_chem_comp_rdkit_properties.tpsa 109.730
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.084
_pdbe_chem_comp_rdkit_properties.CrippenMR 120.822
_pdbe_chem_comp_rdkit_properties.chi0v 15.933
_pdbe_chem_comp_rdkit_properties.chi1v 8.880
_pdbe_chem_comp_rdkit_properties.chi2v 4.037
_pdbe_chem_comp_rdkit_properties.chi3v 4.037
_pdbe_chem_comp_rdkit_properties.chi4v 2.563
_pdbe_chem_comp_rdkit_properties.chi0n 40.933
_pdbe_chem_comp_rdkit_properties.chi1n 21.222
_pdbe_chem_comp_rdkit_properties.chi2n 4.037
_pdbe_chem_comp_rdkit_properties.chi3n 4.037
_pdbe_chem_comp_rdkit_properties.chi4n 2.563
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.760
_pdbe_chem_comp_rdkit_properties.kappa1 6.645
_pdbe_chem_comp_rdkit_properties.kappa2 8.302
_pdbe_chem_comp_rdkit_properties.kappa3 3.941
_pdbe_chem_comp_rdkit_properties.Phi 1.672
#
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
R6D UniChem ChEMBL CHEMBL3986824
R6D UniChem DrugBank DB14770
R6D UniChem PDBe R6D
R6D UniChem 'Guide to Pharmacology' 9764
R6D UniChem fdasrs A6U64OU57E
R6D UniChem SureChEMBL SCHEMBL16820581
R6D UniChem ClinicalTrials LANRAPLENIB
R6D UniChem MedChemExpress HY-109091
R6D UniChem 'Probes And Drugs' PD076547
R6D UniChem BindingDb 212271
R6D UniChem PubChem 118161062
#
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
R6D C02 4.643 -0.421 -0.294 ETKDGv3 1
R6D C03 5.819 -1.086 -0.208 ETKDGv3 2
R6D C05 4.587 -3.090 0.565 ETKDGv3 3
R6D C06 3.333 -2.346 0.447 ETKDGv3 4
R6D C07 6.776 -3.431 0.400 ETKDGv3 5
R6D C08 6.156 -4.548 0.773 ETKDGv3 6
R6D C11 0.795 -2.347 0.525 ETKDGv3 7
R6D C12 4.555 0.978 -0.774 ETKDGv3 8
R6D C14 3.222 2.789 -1.607 ETKDGv3 9
R6D C15 4.287 3.600 -1.669 ETKDGv3 10
R6D C17 5.729 1.889 -0.833 ETKDGv3 11
R6D C18 0.556 -1.674 -0.612 ETKDGv3 12
R6D C19 -0.770 -1.077 -0.867 ETKDGv3 13
R6D C20 -1.787 -1.214 0.018 ETKDGv3 14
R6D C21 -1.510 -1.994 1.266 ETKDGv3 15
R6D C22 -0.304 -2.527 1.495 ETKDGv3 16
R6D C24 -4.135 -0.758 0.823 ETKDGv3 17
R6D C25 -5.504 -0.165 0.459 ETKDGv3 18
R6D C27 -4.736 0.749 -1.607 ETKDGv3 19
R6D C28 -3.303 0.228 -1.420 ETKDGv3 20
R6D C29 -4.747 2.173 0.395 ETKDGv3 21
R6D C30 -4.964 3.530 -0.243 ETKDGv3 22
R6D C32 -5.607 2.761 1.495 ETKDGv3 23
R6D N01 3.405 -1.099 0.056 ETKDGv3 24
R6D N04 5.787 -2.433 0.258 ETKDGv3 25
R6D N09 4.739 -4.336 0.875 ETKDGv3 26
R6D N10 2.074 -2.946 0.794 ETKDGv3 27
R6D N13 3.392 1.442 -1.137 ETKDGv3 28
R6D N16 5.572 3.110 -1.255 ETKDGv3 29
R6D N23 -3.100 -0.619 -0.223 ETKDGv3 30
R6D N26 -5.406 1.068 -0.338 ETKDGv3 31
R6D N33 1.928 3.246 -2.001 ETKDGv3 32
R6D O31 -5.730 3.998 0.838 ETKDGv3 33
R6D H1 6.762 -0.646 -0.498 ETKDGv3 34
R6D H2 7.836 -3.303 0.229 ETKDGv3 35
R6D H3 6.644 -5.495 0.962 ETKDGv3 36
R6D H4 4.191 4.619 -2.019 ETKDGv3 37
R6D H5 6.709 1.573 -0.509 ETKDGv3 38
R6D H6 1.320 -1.575 -1.371 ETKDGv3 39
R6D H7 -0.879 -0.526 -1.789 ETKDGv3 40
R6D H8 -2.272 -2.144 2.017 ETKDGv3 41
R6D H9 -0.129 -3.084 2.406 ETKDGv3 42
R6D H10 -3.775 -0.267 1.753 ETKDGv3 43
R6D H11 -4.297 -1.836 1.040 ETKDGv3 44
R6D H12 -6.089 -0.923 -0.108 ETKDGv3 45
R6D H13 -6.081 0.019 1.390 ETKDGv3 46
R6D H14 -5.332 -0.016 -2.154 ETKDGv3 47
R6D H15 -4.717 1.639 -2.271 ETKDGv3 48
R6D H16 -3.051 -0.354 -2.333 ETKDGv3 49
R6D H17 -2.616 1.101 -1.364 ETKDGv3 50
R6D H18 -3.694 1.986 0.702 ETKDGv3 51
R6D H19 -4.021 4.110 -0.347 ETKDGv3 52
R6D H20 -5.575 3.511 -1.172 ETKDGv3 53
R6D H21 -6.605 2.282 1.608 ETKDGv3 54
R6D H22 -5.058 2.871 2.456 ETKDGv3 55
R6D H23 2.091 -3.816 1.373 ETKDGv3 56
R6D H25 1.108 2.601 -1.946 ETKDGv3 57
R6D H26 1.779 4.221 -2.347 ETKDGv3 58
#