data_P31
#
_chem_comp.id P31
_chem_comp.name
5-[(5-chloro-1H-pyrrolo[2,3-b]pyridin-3-yl)methyl]-N-{[6-(trifluoromethyl)pyridin-3-yl]methyl}pyridin-2-amine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C20 H15 Cl F3 N5"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2014-09-03
_chem_comp.pdbx_modified_date 2015-08-07
_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 417.815
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code P31
_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 4R7H
_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
P31 C1 C1 C 0 1 Y N N N N N -19.449 -1.860 17.704 -5.866 -1.964 0.055 C1 P31 1
P31 C2 C2 C 0 1 Y N N N N N -20.717 -2.023 18.241 -6.488 -1.855 -1.180 C2 P31 2
P31 N4 N4 N 0 1 Y N N N N N -21.605 -1.030 18.468 -6.470 -0.730 -1.863 N4 P31 3
P31 C5 C5 C 0 1 Y N N N N N -19.002 -0.596 17.354 -5.210 -0.867 0.584 C5 P31 4
P31 C7 C7 C 0 1 Y N N N N N -19.883 0.472 17.566 -5.205 0.316 -0.159 C7 P31 5
P31 C8 C8 C 0 1 Y N N N N N -21.130 0.176 18.111 -5.858 0.353 -1.406 C8 P31 6
P31 N9 N9 N 0 1 Y N N N N N -21.817 1.347 18.232 -5.693 1.623 -1.907 N9 P31 7
P31 C11 C11 C 0 1 Y N N N N N -19.828 1.885 17.353 -4.641 1.651 0.048 C11 P31 8
P31 C12 C12 C 0 1 N N N N N N -18.687 2.671 16.785 -3.846 2.114 1.241 C12 P31 9
P31 C15 C15 C 0 1 Y N N N N N -19.215 4.054 16.548 -2.396 1.750 1.051 C15 P31 10
P31 C16 C16 C 0 1 Y N N N N N -19.764 4.430 15.331 -1.919 0.532 1.493 C16 P31 11
P31 N18 N18 N 0 1 Y N N N N N -20.261 5.659 15.069 -0.651 0.203 1.332 N18 P31 12
P31 C19 C19 C 0 1 Y N N N N N -20.224 6.593 16.052 0.209 1.020 0.745 C19 P31 13
P31 C20 C20 C 0 1 Y N N N N N -19.687 6.292 17.301 -0.203 2.263 0.275 C20 P31 14
P31 C22 C22 C 0 1 Y N N N N N -19.183 5.021 17.546 -1.527 2.634 0.424 C22 P31 15
P31 N24 N24 N 0 1 N N N N N N -20.719 7.880 15.859 1.536 0.633 0.596 N24 P31 16
P31 C26 C26 C 0 1 N N N N N N -21.297 8.305 14.598 2.493 1.531 -0.053 C26 P31 17
P31 C29 C29 C 0 1 Y N N N N N -20.628 9.597 14.245 3.851 0.879 -0.088 C29 P31 18
P31 C30 C30 C 0 1 Y N N N N N -21.047 2.383 17.781 -4.967 2.382 -1.029 C30 P31 19
P31 C32 C32 C 0 1 Y N N N N N -19.248 9.650 14.114 4.221 0.090 -1.161 C32 P31 20
P31 N34 N34 N 0 1 Y N N N N N -18.553 10.765 13.815 5.407 -0.485 -1.198 N34 P31 21
P31 C35 C35 C 0 1 Y N N N N N -19.260 11.898 13.630 6.282 -0.332 -0.223 C35 P31 22
P31 C36 C36 C 0 1 Y N N N N N -20.645 11.952 13.750 5.983 0.442 0.881 C36 P31 23
P31 C38 C38 C 0 1 Y N N N N N -21.334 10.784 14.061 4.747 1.067 0.953 C38 P31 24
P31 C40 C40 C 0 1 N N N N N N -18.460 13.122 13.315 7.623 -1.016 -0.312 C40 P31 25
P31 F41 F41 F 0 1 N N N N N N -18.850 14.185 14.065 8.580 -0.256 0.369 F41 P31 26
P31 F42 F42 F 0 1 N N N N N N -17.137 12.932 13.569 7.538 -2.286 0.268 F42 P31 27
P31 F43 F43 F 0 1 N N N N N N -18.504 13.568 12.039 7.995 -1.140 -1.655 F43 P31 28
P31 CL1 CL44 CL 0 0 N N N N N N -18.406 -3.195 17.456 -5.916 -3.462 0.932 CL44 P31 29
P31 H1 H1 H 0 1 N N N N N N -21.020 -3.027 18.499 -7.000 -2.713 -1.590 H1 P31 30
P31 H2 H2 H 0 1 N N N N N N -18.018 -0.441 16.936 -4.718 -0.923 1.543 H2 P31 31
P31 H3 H3 H 0 1 N N N N N N -22.744 1.435 18.596 -6.041 1.935 -2.757 H3 P31 32
P31 H4 H4 H 0 1 N N N N N N -18.348 2.224 15.839 -3.939 3.196 1.342 H4 P31 33
P31 H5 H5 H 0 1 N N N N N N -17.850 2.699 17.498 -4.227 1.632 2.141 H5 P31 34
P31 H6 H6 H 0 1 N N N N N N -19.796 3.693 14.542 -2.592 -0.160 1.978 H6 P31 35
P31 H7 H7 H 0 1 N N N N N N -19.662 7.044 18.076 0.501 2.928 -0.203 H7 P31 36
P31 H8 H8 H 0 1 N N N N N N -18.766 4.784 18.513 -1.877 3.590 0.065 H8 P31 37
P31 H9 H9 H 0 1 N N N N N N -19.957 8.502 16.041 1.827 -0.233 0.922 H9 P31 38
P31 H10 H10 H 0 1 N N N N N N -22.381 8.455 14.707 2.164 1.739 -1.071 H10 P31 39
P31 H11 H11 H 0 1 N N N N N N -21.107 7.552 13.819 2.553 2.465 0.507 H11 P31 40
P31 H12 H12 H 0 1 N N N N N N -21.342 3.422 17.762 -4.697 3.417 -1.181 H12 P31 41
P31 H13 H13 H 0 1 N N N N N N -18.693 8.735 14.262 3.531 -0.058 -1.978 H13 P31 42
P31 H14 H14 H 0 1 N N N N N N -21.175 12.882 13.605 6.704 0.563 1.676 H14 P31 43
P31 H15 H15 H 0 1 N N N N N N -22.409 10.797 14.159 4.485 1.678 1.804 H15 P31 44
#
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
P31 F43 C40 SING N N 1
P31 C40 F42 SING N N 2
P31 C40 C35 SING N N 3
P31 C40 F41 SING N N 4
P31 C35 C36 DOUB Y N 5
P31 C35 N34 SING Y N 6
P31 C36 C38 SING Y N 7
P31 N34 C32 DOUB Y N 8
P31 C38 C29 DOUB Y N 9
P31 C32 C29 SING Y N 10
P31 C29 C26 SING N N 11
P31 C26 N24 SING N N 12
P31 N18 C16 DOUB Y N 13
P31 N18 C19 SING Y N 14
P31 C16 C15 SING Y N 15
P31 N24 C19 SING N N 16
P31 C19 C20 DOUB Y N 17
P31 C15 C12 SING N N 18
P31 C15 C22 DOUB Y N 19
P31 C12 C11 SING N N 20
P31 C20 C22 SING Y N 21
P31 C11 C7 SING Y N 22
P31 C11 C30 DOUB Y N 23
P31 C5 C7 DOUB Y N 24
P31 C5 C1 SING Y N 25
P31 CL1 C1 SING N N 26
P31 C7 C8 SING Y N 27
P31 C1 C2 DOUB Y N 28
P31 C30 N9 SING Y N 29
P31 C8 N9 SING Y N 30
P31 C8 N4 DOUB Y N 31
P31 C2 N4 SING Y N 32
P31 C2 H1 SING N N 33
P31 C5 H2 SING N N 34
P31 N9 H3 SING N N 35
P31 C12 H4 SING N N 36
P31 C12 H5 SING N N 37
P31 C16 H6 SING N N 38
P31 C20 H7 SING N N 39
P31 C22 H8 SING N N 40
P31 N24 H9 SING N N 41
P31 C26 H10 SING N N 42
P31 C26 H11 SING N N 43
P31 C30 H12 SING N N 44
P31 C32 H13 SING N N 45
P31 C36 H14 SING N N 46
P31 C38 H15 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
P31 SMILES ACDLabs 12.01 FC(F)(F)c1ncc(cc1)CNc2ncc(cc2)Cc4c3cc(Cl)cnc3nc4
P31 InChI InChI 1.03 InChI=1S/C20H15ClF3N5/c21-15-6-16-14(10-28-19(16)29-11-15)5-12-2-4-18(26-7-12)27-9-13-1-3-17(25-8-13)20(22,23)24/h1-4,6-8,10-11H,5,9H2,(H,26,27)(H,28,29)
P31 InChIKey InChI 1.03 JGWRKYUXBBNENE-UHFFFAOYSA-N
P31 SMILES_CANONICAL CACTVS 3.385 FC(F)(F)c1ccc(CNc2ccc(Cc3c[nH]c4ncc(Cl)cc34)cn2)cn1
P31 SMILES CACTVS 3.385 FC(F)(F)c1ccc(CNc2ccc(Cc3c[nH]c4ncc(Cl)cc34)cn2)cn1
P31 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 c1cc(ncc1Cc2c[nH]c3c2cc(cn3)Cl)NCc4ccc(nc4)C(F)(F)F
P31 SMILES "OpenEye OEToolkits" 1.7.6 c1cc(ncc1Cc2c[nH]c3c2cc(cn3)Cl)NCc4ccc(nc4)C(F)(F)F
#
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
P31 "SYSTEMATIC NAME" ACDLabs 12.01 5-[(5-chloro-1H-pyrrolo[2,3-b]pyridin-3-yl)methyl]-N-{[6-(trifluoromethyl)pyridin-3-yl]methyl}pyridin-2-amine
P31 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 5-[(5-chloranyl-1H-pyrrolo[2,3-b]pyridin-3-yl)methyl]-N-[[6-(trifluoromethyl)pyridin-3-yl]methyl]pyridin-2-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
P31 'Create component' 2014-09-03 RCSB
P31 'Initial release' 2015-08-12 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id P31
_pdbe_chem_comp_drugbank_details.drugbank_id DB12978
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Pexidartinib
_pdbe_chem_comp_drugbank_details.description
'Pexidartinib is a selective tyrosine kinase inhibitor that works by inhibiting the colony-stimulating factor (CSF1)/CSF1 receptor pathway. Pexidartinib was originally developed by Daiichi Sankyo, Inc. and it was approved by the FDA in August 2019 as the first systemic therapy for adult patients with symptomatic tenosynovial giant cell tumor.[L7901] Tenosynovial giant cell tumor is a rare form of non-malignant tumor that causes the synovium and tendon sheaths to thicken and overgrow, leading to damage in surrounding joint tissue.[A182240,L7901] Debilitating symptoms often follow with tenosynovial giant cell tumors, along with a risk of significant functional limitations and a reduced quality of life in patients.[L7901]  While surgical resection is a current standard of care for tenosynovial giant cell tumor, there are tumor types where surgeries are deemed clinically ineffective with a high risk of lifetime recurrence.[L7895] Pexidartinib works by blocking the immune responses that are activated in tenosynovial giant cell tumors. In clinical trials, pexidartinib was shown to promote improvements in patient symptoms and functional outcomes in TGCT.[A182243] Pexidartinib is available in oral formulations and it is commonly marketed as Turalio.[L7901]'
_pdbe_chem_comp_drugbank_details.cas_number 1029044-16-3
_pdbe_chem_comp_drugbank_details.mechanism_of_action
'Tenosynovial giant cell tumor is a rare, non-malignant neoplasm that causes abnormal growth and damage to the synovium, bursae, or tendon sheaths.[L7901] Recruitment of immune cells, specifically macrophages, is closely associated with the tumor mass formation in tenosynovial giant cell tumors. [A182240] Macrophages drive tumor-promoting inflammation [A185942] and play a central role in every stage of tumor progression.[A185939] As the most abundant immune cells in the tumor microenvironment of solid tumors, macrophages promote processes that enhance tumor survival, such as angiogenesis, tumor cell invasion, and intravasation at the primary site.[A185939] They also modulate the immune response to tumors to inhibit tumor clearance and directly engage with tumor cells to activate pro-survival signaling pathways.[A185948]  The recruitment, proliferation, and irreversible differentiation of macrophages are regulated by colony-stimulating factor-1 (CSF-1),[A182255,A185933] which is a cytokine that is often translocated and highly expressed in tenosynovial giant cell tumors.[A185948] Elevated expression of CSF-1 and CSF-1 receptor (CSF1R) has also been implicated in various models of malignant cancers and tumors.[A182273] Pexidartinib targets the CSF1/CSF1R pathway as a selective CSF1R inhibitor. It stimulates the autoinhibited state of the CSF1R by interacting with the juxtamembrane region of CSF1R, which is responsible for folding and inactivation of the kinase domain, and preventing the binding of CSF1 and ATP to the region.[A182240] Without the binding of CSF1 to the receptor, CSF1R cannot undergo ligand-induced autophosphorylation.[L7883] By inhibiting the CSF1R signaling pathway, pexidartinib works to inhibit tumor cell proliferation and downmodulate cells involved in the disease, such as macrophages. It was also shown to inhibit the CD117 or proto-oncogene receptor tyrosine kinase (cKIT), mutant fms-like tyrosine kinase 3 (FLT3), and platelet-derived growth factor receptor (PDGFR)-β, which are all receptor tyrosine kinases that regulate critical cellular processes such as cell proliferation and survival.[A182255]'
#
_pdbe_chem_comp_synonyms.comp_id P31
_pdbe_chem_comp_synonyms.name Pexidartinib
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id P31
_pdbe_chem_comp_drugbank_classification.drugbank_id DB12978
_pdbe_chem_comp_drugbank_classification.parent Pyrrolopyridines
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Pyrrolopyridines
_pdbe_chem_comp_drugbank_classification.superclass 'Organoheterocyclic compounds'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as pyrrolopyridines. These are compounds containing a pyrrolopyridine moiety, which consists of a pyrrole ring fused to a pyridine. Pyrrole is 5-membered ring consisting of four carbon atoms and one nitrogen atom. Pyridine is a 6-membered ring consisting of five carbon atoms and one nitrogen center.'
#
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
P31 DB12978 'Macrophage colony-stimulating factor 1 receptor' Humans P07333 yes 1
P31 DB12978 'Mast/stem cell growth factor receptor Kit' Humans P10721 yes 2
P31 DB12978 'Receptor-type tyrosine-protein kinase FLT3' Humans P36888 yes 3
P31 DB12978 'Platelet-derived growth factor receptor beta' Humans P09619 unknown 4
#
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
P31 C1 C 4.299 -2.205 1
P31 C2 C 4.299 -3.705 2
P31 N4 N 5.598 -4.455 3
P31 C5 C 5.598 -1.455 4
P31 C7 C 6.897 -2.205 5
P31 C8 C 6.897 -3.705 6
P31 N9 N 8.316 -4.162 7
P31 C11 C 8.316 -1.748 8
P31 C12 C 8.783 -0.322 9
P31 C15 C 10.250 -0.013 10
P31 C16 C 10.716 1.413 11
P31 N18 N 12.184 1.722 12
P31 C19 C 13.186 0.606 13
P31 C20 C 12.720 -0.820 14
P31 C22 C 11.252 -1.129 15
P31 N24 N 14.653 0.915 16
P31 C26 C 15.119 2.341 17
P31 C29 C 16.587 2.650 18
P31 C30 C 9.192 -2.955 19
P31 C32 C 17.053 4.076 20
P31 N34 N 18.521 4.385 21
P31 C35 C 19.523 3.269 22
P31 C36 C 19.057 1.843 23
P31 C38 C 17.589 1.534 24
P31 C40 C 20.991 3.578 25
P31 F41 F 21.300 2.111 26
P31 F42 F 20.681 5.046 27
P31 F43 F 22.458 3.888 28
P31 CL1 Cl 3.000 -1.455 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
P31 F43 C40 SINGLE NONE 1
P31 C40 F42 SINGLE NONE 2
P31 C40 C35 SINGLE NONE 3
P31 C40 F41 SINGLE NONE 4
P31 C35 C36 DOUBLE NONE 5
P31 C35 N34 SINGLE NONE 6
P31 C36 C38 SINGLE NONE 7
P31 N34 C32 DOUBLE NONE 8
P31 C38 C29 DOUBLE NONE 9
P31 C32 C29 SINGLE NONE 10
P31 C29 C26 SINGLE NONE 11
P31 C26 N24 SINGLE NONE 12
P31 N18 C16 DOUBLE NONE 13
P31 N18 C19 SINGLE NONE 14
P31 C16 C15 SINGLE NONE 15
P31 N24 C19 SINGLE NONE 16
P31 C19 C20 DOUBLE NONE 17
P31 C15 C12 SINGLE NONE 18
P31 C15 C22 DOUBLE NONE 19
P31 C12 C11 SINGLE NONE 20
P31 C20 C22 SINGLE NONE 21
P31 C11 C7 SINGLE NONE 22
P31 C11 C30 DOUBLE NONE 23
P31 C5 C7 SINGLE NONE 24
P31 C5 C1 DOUBLE NONE 25
P31 CL1 C1 SINGLE NONE 26
P31 C7 C8 DOUBLE NONE 27
P31 C1 C2 SINGLE NONE 28
P31 C30 N9 SINGLE NONE 29
P31 C8 N9 SINGLE NONE 30
P31 C8 N4 SINGLE NONE 31
P31 C2 N4 DOUBLE NONE 32
#
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
P31 MurckoScaffold S1 scaffold 'c1cncc(CNc2ccc(Cc3c[nH]c4ncccc34)cn2)c1' InChI=1S/C19H17N5/c1-3-15(10-20-7-1)12-23-18-6-5-14(11-22-18)9-16-13-24-19-17(16)4-2-8-21-19/h1-8,10-11,13H,9,12H2,(H,21,24)(H,22,23) SAVVPNOYATXABS-UHFFFAOYSA-N
P31 pyridine F1 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
P31 pyrrole F2 fragment 'c1cc[nH]c1' InChI=1S/C4H5N/c1-2-4-5-3-1/h1-5H KAESVJOAVNADME-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
P31 C1 S1 1
P31 C2 S1 1
P31 N4 S1 1
P31 C5 S1 1
P31 C7 S1 1
P31 C8 S1 1
P31 N9 S1 1
P31 C11 S1 1
P31 C12 S1 1
P31 C15 S1 1
P31 C16 S1 1
P31 N18 S1 1
P31 C19 S1 1
P31 C20 S1 1
P31 C22 S1 1
P31 N24 S1 1
P31 C26 S1 1
P31 C29 S1 1
P31 C30 S1 1
P31 C32 S1 1
P31 N34 S1 1
P31 C35 S1 1
P31 C36 S1 1
P31 C38 S1 1
P31 C2 F1 1
P31 C1 F1 1
P31 C5 F1 1
P31 C7 F1 1
P31 C8 F1 1
P31 N4 F1 1
P31 C16 F1 2
P31 C15 F1 2
P31 C22 F1 2
P31 C20 F1 2
P31 C19 F1 2
P31 N18 F1 2
P31 C32 F1 3
P31 C29 F1 3
P31 C38 F1 3
P31 C36 F1 3
P31 C35 F1 3
P31 N34 F1 3
P31 C8 F2 1
P31 C7 F2 1
P31 C11 F2 1
P31 C30 F2 1
P31 N9 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id P31
_pdbe_chem_comp_rdkit_properties.exactmw 417.097
_pdbe_chem_comp_rdkit_properties.amw 417.822
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 29
_pdbe_chem_comp_rdkit_properties.NumAtoms 44
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 9
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.150
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 4
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 4
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 4
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 189.731
_pdbe_chem_comp_rdkit_properties.tpsa 66.490
_pdbe_chem_comp_rdkit_properties.CrippenClogP 4.200
_pdbe_chem_comp_rdkit_properties.CrippenMR 100.618
_pdbe_chem_comp_rdkit_properties.chi0v 14.504
_pdbe_chem_comp_rdkit_properties.chi1v 7.870
_pdbe_chem_comp_rdkit_properties.chi2v 3.371
_pdbe_chem_comp_rdkit_properties.chi3v 3.371
_pdbe_chem_comp_rdkit_properties.chi4v 2.104
_pdbe_chem_comp_rdkit_properties.chi0n 28.748
_pdbe_chem_comp_rdkit_properties.chi1n 14.886
_pdbe_chem_comp_rdkit_properties.chi2n 3.192
_pdbe_chem_comp_rdkit_properties.chi3n 3.192
_pdbe_chem_comp_rdkit_properties.chi4n 1.968
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.130
_pdbe_chem_comp_rdkit_properties.kappa1 8.314
_pdbe_chem_comp_rdkit_properties.kappa2 7.710
_pdbe_chem_comp_rdkit_properties.kappa3 4.482
_pdbe_chem_comp_rdkit_properties.Phi 2.210
#
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
P31 UniChem DrugBank DB12978
P31 UniChem 'Guide to Pharmacology' 8710
P31 UniChem ChEBI 145373
P31 UniChem ZINC ZINC000115705166
P31 UniChem fdasrs 6783M2LV5X
P31 UniChem SureChEMBL SCHEMBL1267310
P31 UniChem PharmGKB PA166321741
P31 UniChem HMDB HMDB0256360
P31 UniChem BindingDb 50177716
P31 UniChem DrugCentral 5343
P31 UniChem ChemicalBook CB22742977
P31 UniChem DailyMed PEXIDARTINIB
P31 UniChem ClinicalTrials PEXIDARTINIB
P31 UniChem ClinicalTrials 'PEXIDARTINIB HYDROCHLORIDE'
P31 UniChem ClinicalTrials PLX-3397
P31 UniChem ClinicalTrials PLX3397
P31 UniChem rxnorm PEXIDARTINIB
P31 UniChem rxnorm 'PEXIDARTINIB HYDROCHLORIDE'
P31 UniChem rxnorm TURALIO
P31 UniChem MedChemExpress HY-16749
P31 UniChem 'Probes And Drugs' PD012397
P31 UniChem PubChem 25151352
P31 UniChem 'PubChem TPHARMA' 57245138
#
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
P31 C1 -5.617 1.936 0.496 ETKDGv3 1
P31 C2 -6.242 2.031 -0.858 ETKDGv3 2
P31 N4 -6.169 1.029 -1.695 ETKDGv3 3
P31 C5 -4.972 0.812 0.856 ETKDGv3 4
P31 C7 -4.916 -0.287 -0.120 ETKDGv3 5
P31 C8 -5.483 -0.167 -1.300 ETKDGv3 6
P31 N9 -5.285 -1.321 -2.099 ETKDGv3 7
P31 C11 -4.283 -1.602 -0.075 ETKDGv3 8
P31 C12 -3.416 -2.148 1.019 ETKDGv3 9
P31 C15 -1.985 -1.743 0.798 ETKDGv3 10
P31 C16 -1.456 -0.501 1.406 ETKDGv3 11
P31 N18 -0.230 -0.131 1.178 ETKDGv3 12
P31 C19 0.655 -0.896 0.336 ETKDGv3 13
P31 C20 0.209 -2.024 -0.238 ETKDGv3 14
P31 C22 -1.179 -2.463 0.001 ETKDGv3 15
P31 N24 2.000 -0.452 0.112 ETKDGv3 16
P31 C26 2.505 0.776 0.725 ETKDGv3 17
P31 C29 3.935 1.019 0.325 ETKDGv3 18
P31 C30 -4.507 -2.177 -1.259 ETKDGv3 19
P31 C32 4.245 1.797 -0.895 ETKDGv3 20
P31 N34 5.481 1.972 -1.265 ETKDGv3 21
P31 C35 6.585 1.422 -0.519 ETKDGv3 22
P31 C36 6.341 0.699 0.586 ETKDGv3 23
P31 C38 4.948 0.481 1.022 ETKDGv3 24
P31 C40 7.992 1.654 -0.986 ETKDGv3 25
P31 F41 8.714 2.299 0.002 ETKDGv3 26
P31 F42 7.997 2.438 -2.126 ETKDGv3 27
P31 F43 8.594 0.442 -1.274 ETKDGv3 28
P31 CL1 -5.724 3.288 1.607 ETKDGv3 29
P31 H1 -6.759 2.935 -1.151 ETKDGv3 30
P31 H2 -4.512 0.715 1.830 ETKDGv3 31
P31 H3 -5.583 -1.484 -3.085 ETKDGv3 32
P31 H4 -3.504 -3.256 1.051 ETKDGv3 33
P31 H5 -3.773 -1.765 1.999 ETKDGv3 34
P31 H6 -2.084 0.105 2.045 ETKDGv3 35
P31 H7 0.852 -2.615 -0.877 ETKDGv3 36
P31 H8 -1.538 -3.365 -0.480 ETKDGv3 37
P31 H9 2.629 -1.020 -0.502 ETKDGv3 38
P31 H10 1.878 1.635 0.401 ETKDGv3 39
P31 H11 2.426 0.698 1.832 ETKDGv3 40
P31 H12 -4.126 -3.143 -1.565 ETKDGv3 41
P31 H13 3.447 2.224 -1.488 ETKDGv3 42
P31 H14 7.153 0.269 1.161 ETKDGv3 43
P31 H15 4.758 -0.117 1.904 ETKDGv3 44
#