KarrLab/bpforms

id: canonical_rna
name: Canonical RNA nucleotide monophosphates
description: The canonical RNA nucleotide monophosphates
monomers:
  A:
    id: adenosine
    name: adenosine
    identifiers:
    - ns: pubchem.compound
      id: '60961'
    - ns: metacyc.compound
      id: ADENOSINE
    - ns: chebi
      id: CHEBI:16335
    - ns: modomics.new_nomenclature
      id: A
    - ns: modomics.short_name
      id: A
    structure: OC1C(O)C(OC1n1cnc2c1ncnc2N)COP(=O)([O-])[O-]
    l_bond_atoms:
    - molecule: Monomer
      element: P
      position: 20
    l_displaced_atoms:
    - molecule: Monomer
      element: O
      position: 23
      charge: -1
    r_bond_atoms:
    - molecule: Monomer
      element: O
      position: 4
    r_displaced_atoms:
    - molecule: Monomer
      element: H
      position: 4
  C:
    id: cytidine
    name: cytidine
    identifiers:
    - ns: metacyc.compound
      id: CYTIDINE
    - ns: pubchem.compound
      id: '6175'
    - ns: chebi
      id: CHEBI:17562
    - ns: modomics.new_nomenclature
      id: C
    - ns: modomics.short_name
      id: C
    structure: OC1C(O)C(OC1n1ccc(nc1=O)N)COP(=O)([O-])[O-]
    l_bond_atoms:
    - molecule: Monomer
      element: P
      position: 18
    l_displaced_atoms:
    - molecule: Monomer
      element: O
      position: 21
      charge: -1
    r_bond_atoms:
    - molecule: Monomer
      element: O
      position: 4
    r_displaced_atoms:
    - molecule: Monomer
      element: H
      position: 4
  G:
    id: guanosine
    name: guanosine
    identifiers:
    - ns: pubchem.compound
      id: '6802'
    - ns: metacyc.compound
      id: GUANOSINE
    - ns: chebi
      id: CHEBI:16750
    - ns: modomics.new_nomenclature
      id: G
    - ns: modomics.short_name
      id: G
    structure: OC1C(O)C(OC1n1cnc2c1nc(N)[nH]c2=O)COP(=O)([O-])[O-]
    l_bond_atoms:
    - molecule: Monomer
      element: P
      position: 22
    l_displaced_atoms:
    - molecule: Monomer
      element: O
      position: 25
      charge: -1
    r_bond_atoms:
    - molecule: Monomer
      element: O
      position: 4
    r_displaced_atoms:
    - molecule: Monomer
      element: H
      position: 4
  U:
    id: uridine
    name: uridine
    identifiers:
    - ns: pubchem.compound
      id: '6029'
    - ns: metacyc.compound
      id: URIDINE
    - ns: chebi
      id: CHEBI:16704
    - ns: modomics.new_nomenclature
      id: U
    - ns: modomics.short_name
      id: U
    structure: OC1C(O)C(OC1n1ccc(=O)[nH]c1=O)COP(=O)([O-])[O-]
    l_bond_atoms:
    - molecule: Monomer
      element: P
      position: 19
    l_displaced_atoms:
    - molecule: Monomer
      element: O
      position: 22
      charge: -1
    r_bond_atoms:
    - molecule: Monomer
      element: O
      position: 4
    r_displaced_atoms:
    - molecule: Monomer
      element: H
      position: 4