data_CPT
#
_chem_comp.id CPT
_chem_comp.name Cisplatin
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAD
_chem_comp.formula "Cl2 H6 N2 Pt"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms diammine(dichloro)platinum
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2021-03-01
_chem_comp.pdbx_ambiguous_flag Y
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces ?
_chem_comp.formula_weight 300.045
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code CPT
_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 Y
_chem_comp.pdbx_model_coordinates_db_code 1A2E
_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
CPT PT1 PT1 PT 0 0 N N N N N N 9.157 7.362 35.129 ? ? ? PT1 CPT 1
CPT N1 N1 N 0 1 N Y N N N N 9.603 6.346 33.453 ? ? ? N1 CPT 2
CPT N2 N2 N 0 1 N Y N N N N 7.233 7.331 34.594 ? ? ? N2 CPT 3
CPT H11 H11 H 0 1 N Y N N N N 10.589 6.184 33.413 ? ? ? H11 CPT 4
CPT H12 H12 H 0 1 N Y N N N N 9.121 5.470 33.456 ? ? ? H12 CPT 5
CPT H21 H21 H 0 1 N Y N N N N 6.686 7.802 35.286 ? ? ? H21 CPT 6
CPT H22 H22 H 0 1 N Y N N N N 7.125 7.792 33.713 ? ? ? H22 CPT 7
CPT CL2 CL2 CL 0 0 N Y N N N N 9.080 7.948 36.213 ? ? ? CL2 CPT 8
CPT CL1 CL1 CL 0 0 N Y N N N N 10.583 7.390 35.485 ? ? ? CL1 CPT 9
CPT H13 H13 H 0 1 N Y N N N N 9.321 6.879 32.655 ? ? ? H13 CPT 10
CPT H23 H23 H 0 1 N Y N N N N 6.925 6.383 34.514 ? ? ? H23 CPT 11
#
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
CPT PT1 N1 SING N N 1
CPT PT1 N2 SING N N 2
CPT N1 H11 SING N N 3
CPT N1 H12 SING N N 4
CPT N1 H13 SING N N 5
CPT N2 H21 SING N N 6
CPT N2 H22 SING N N 7
CPT N2 H23 SING N N 8
CPT CL2 PT1 SING N N 9
CPT CL1 PT1 SING N N 10
#
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
CPT SMILES ACDLabs 12.01 "[Pt](N)(N)(Cl)Cl"
CPT InChI InChI 1.03 InChI=1S/2ClH.2H3N.Pt/h2*1H;2*1H3;/q;;;;+2/p-2
CPT InChIKey InChI 1.03 LXZZYRPGZAFOLE-UHFFFAOYSA-L
CPT SMILES_CANONICAL CACTVS 3.385 N|[Pt](|N)(Cl)Cl
CPT SMILES CACTVS 3.385 N|[Pt](|N)(Cl)Cl
CPT SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "[NH3][Pt]([NH3])(Cl)Cl"
CPT SMILES "OpenEye OEToolkits" 1.7.6 "[NH3][Pt]([NH3])(Cl)Cl"
#
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
CPT "SYSTEMATIC NAME" ACDLabs 12.01 diammine(dichloro)platinum
CPT "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 bis(chloranyl)-bis($l^{4}-azanyl)platinum
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
CPT 'Create component' 1999-07-08 RCSB
CPT 'Modify leaving atom flag' 2014-05-22 RCSB
CPT 'Other modification' 2015-07-08 RCSB
CPT 'Modify synonyms' 2021-03-01 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id CPT
_pdbx_chem_comp_synonyms.name diammine(dichloro)platinum
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_details.comp_id CPT
_pdbe_chem_comp_drugbank_details.drugbank_id DB00515
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Cisplatin
_pdbe_chem_comp_drugbank_details.description
'Cisplatin, cisplatinum or cis-diamminedichloroplatinum(II) (CDDP) is a platinum-based chemotherapy drug used to treat various types of cancers, including sarcomas, some carcinomas (e.g. small cell lung cancer, and ovarian cancer), lymphomas and germ cell tumors. It was the first member of its class, which now also includes carboplatin and oxaliplatin.'
_pdbe_chem_comp_drugbank_details.cas_number 15663-27-1
_pdbe_chem_comp_drugbank_details.mechanism_of_action
'Alkylating agents work by three different mechanisms: 1) attachment of alkyl groups to DNA bases, resulting in the DNA being fragmented by repair enzymes in their attempts to replace the alkylated bases, preventing DNA synthesis and RNA transcription from the affected DNA, 2) DNA damage via the formation of cross-links (bonds between atoms in the DNA) which prevents DNA from being separated for synthesis or transcription, and 3) the induction of mispairing of the nucleotides leading to mutations.'
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
CPT diammine(dichloro)platinum wwPDB ?
CPT (SP-4-2)-DIAMMINEDICHLOROPLATINUM DrugBank ?
CPT CDDP DrugBank ?
CPT Cis-DDP DrugBank ?
CPT CIS-DIAMMINEDICHLOROPLATINUM DrugBank ?
CPT 'CIS-DIAMMINEDICHLOROPLATINUM II' DrugBank ?
CPT cis-diamminedichloroplatinum(II) DrugBank ?
CPT Cisplatin DrugBank ?
CPT 'INT-230-6 COMPONENT CISPLATIN' DrugBank ?
CPT 'INT230-6 COMPONENT CISPLATIN' DrugBank ?
CPT 'PLATINUM, DIAMMINEDICHLORO-, (SP-4-2)-' DrugBank ?
CPT Abiplatin DrugBank 'International brand'
CPT Cisplatyl DrugBank 'International brand'
CPT Platidiam DrugBank 'International brand'
CPT Platin DrugBank 'International brand'
#
_pdbe_chem_comp_drugbank_classification.comp_id CPT
_pdbe_chem_comp_drugbank_classification.drugbank_id DB00515
_pdbe_chem_comp_drugbank_classification.parent 'Transition metal chlorides'
_pdbe_chem_comp_drugbank_classification.kingdom 'Inorganic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Transition metal salts'
_pdbe_chem_comp_drugbank_classification.superclass 'Mixed metal/non-metal compounds'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of inorganic compounds known as transition metal chlorides. These are inorganic compounds in which the largest halogen atom is Chlorine, and the heaviest metal atom is a transition metal.'
#
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
CPT DB00515 'DNA-3-methyladenine glycosylase' Humans P29372 unknown 1
CPT DB00515 Alpha-2-macroglobulin Humans P01023 unknown 2
CPT DB00515 Serotransferrin Humans P02787 unknown 3
CPT DB00515 'Copper transport protein ATOX1' Humans O00244 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
CPT PT1 Pt -0.001 -0.220 1
CPT N1 N -1.302 -0.966 2
CPT N2 N 1.296 -0.973 3
CPT CL2 Cl -0.747 1.081 4
CPT CL1 Cl 0.753 1.077 5
#
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
CPT N1 PT1 DATIVE NONE 1
CPT N2 PT1 DATIVE NONE 2
CPT CL2 PT1 SINGLE NONE 3
CPT CL1 PT1 SINGLE NONE 4
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id CPT
_pdbe_chem_comp_rdkit_properties.exactmw 298.956
_pdbe_chem_comp_rdkit_properties.amw 300.046
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 0
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 5
_pdbe_chem_comp_rdkit_properties.NumAtoms 11
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_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 50.832
_pdbe_chem_comp_rdkit_properties.tpsa 53.600
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.700
_pdbe_chem_comp_rdkit_properties.CrippenMR 21.750
_pdbe_chem_comp_rdkit_properties.chi0v 5.751
_pdbe_chem_comp_rdkit_properties.chi1v 8.185
_pdbe_chem_comp_rdkit_properties.chi2v 0
_pdbe_chem_comp_rdkit_properties.chi3v 0
_pdbe_chem_comp_rdkit_properties.chi4v 0
_pdbe_chem_comp_rdkit_properties.chi0n 7.967
_pdbe_chem_comp_rdkit_properties.chi1n 3.205
_pdbe_chem_comp_rdkit_properties.chi2n 0
_pdbe_chem_comp_rdkit_properties.chi3n 0
_pdbe_chem_comp_rdkit_properties.chi4n 0
_pdbe_chem_comp_rdkit_properties.hallKierAlpha 1.188
_pdbe_chem_comp_rdkit_properties.kappa1 1.331
_pdbe_chem_comp_rdkit_properties.kappa2 1.761
_pdbe_chem_comp_rdkit_properties.kappa3 37.350
_pdbe_chem_comp_rdkit_properties.Phi 0.469
#
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
CPT UniChem DrugBank DB00515
CPT UniChem 'PubChem DOTF' 12013191
CPT UniChem ChEBI 27899
CPT UniChem ChEBI 35852
CPT UniChem eMolecules 10182026
CPT UniChem fdasrs BW0OY6ZTD4
CPT UniChem fdasrs Q20Q21Q62J
CPT UniChem 'PubChem TPHARMA' 14825229
CPT UniChem PubChem 5460033
CPT UniChem LINCS LSM-4268
CPT UniChem ACTor 14283-03-5
CPT UniChem 'EPA CompTox Dashboard' DTXSID50275807
CPT UniChem BRENDA 129850
CPT UniChem BRENDA 1397
CPT UniChem BRENDA 153393
CPT UniChem BRENDA 154377
CPT UniChem BRENDA 229295
CPT UniChem BRENDA 229296
CPT UniChem BRENDA 48173
CPT UniChem ChemicalBook CB6236182
CPT UniChem rxnorm CISPLATIN
CPT UniChem 'Probes And Drugs' PD001382
CPT UniChem eMolecules 14089862
CPT UniChem eMolecules 498535
CPT UniChem SureChEMBL SCHEMBL3789
CPT UniChem 'PubChem TPHARMA' 14873757
CPT UniChem PubChem 5702198
CPT UniChem PubChem 84691
#
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
CPT PT1 -0.077 0.890 0.247 ETKDGv3 1
CPT N1 -1.552 -0.443 -0.258 ETKDGv3 2
CPT N2 1.619 -0.205 -0.076 ETKDGv3 3
CPT H11 -2.588 -0.325 -0.199 ETKDGv3 4
CPT H12 -1.315 -0.505 -1.273 ETKDGv3 5
CPT H21 1.511 -0.293 -1.112 ETKDGv3 6
CPT H22 1.494 -1.163 0.321 ETKDGv3 7
CPT CL2 -0.186 1.677 1.046 ETKDGv3 8
CPT CL1 -0.186 1.677 1.046 ETKDGv3 9
CPT H13 -1.332 -1.375 0.159 ETKDGv3 10
CPT H23 2.612 0.065 0.099 ETKDGv3 11
#