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cv_metal.txt
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----------------------------------------------------------------------------
neXtProt
SIB - Swiss Institute of Bioinformatics and GeneBio SA
Geneva, Switzerland
----------------------------------------------------------------------------
Description: Controlled vocabulary of metal-binding sites
File name: cv_metal.txt
Last update: 22-Nov-2015
----------------------------------------------------------------------------
The definition of the CV is provided in the following format:
--------- --------------------------- ----------------------
Line code Content Occurrence in an entry
--------- --------------------------- ----------------------
ID Identifier (metal name) Once; starts an entry
AC Accession (CVME_xxxx) Once
DE Definition Once or more
SY Synonyms Optional; once or more
KW X-ref to Swiss-Prot keyword Optional; once or more
// Terminator Once; ends an entry
AN Next free AC: CVME_0038
__________________________________________________________________________
ID Calcium.
AC CVME_0001
DE Annotate an amino acid residue that binds a calcium (Ca(2+)) cation.
DE Calcium is an alkaline earth metal with the atomic number: 20.
SY Ca; Calcium ion; Ca ion.
KW KW-0106:Calcium.
//
ID Calcium or magnesium.
AC CVME_0037
DE Annotate an amino acid residue that binds either a calcium (Ca(2+))
DE or a magnesium (Mg(+2)) cation.
SY Calcium 6 or magnesium; Calcium 5 or magnesium; Calcium 4 or magnesium.
KW KW-0106:Calcium.
KW KW-0460:Magnesium.
//
ID Cobalt.
AC CVME_0002
DE Annotate an amino acid residue that binds a cobalt (Co(2+) or Co(3+))
DE cation. Cobalt is a metal with the atomic number: 27.
SY Co; Cobalt ion; Co ion; Cobalt cation; Co cation.
KW KW-0170:Cobalt.
//
ID Cobalt (cobalamin axial ligand).
AC CVME_0003
DE Annotate an amino acid residue that binds a cobalt (Co(3+)) cation
DE that is in the center of the tetrapyrrole ring structure (corrin ring)
DE of a cobalamin cofactor.
KW KW-0846:Cobalamin.
KW KW-0170:Cobalt.
//
ID Copper.
AC CVME_0004
DE Annotate an amino acid residue that binds a copper (Cu(2+) or Cu(1+))
DE cation. Copper is a metal with the atomic number: 29.
SY Cu; Copper ion; Cu ion; Copper cation; Cu cation.
KW KW-0186:Copper.
//
ID Copper or nickel.
AC CVME_0005
DE Annotate an amino acid residue that binds either a copper (Cu(2+)) or
DE a nickel (Ni(2+)) cation.
KW KW-0186:Copper.
KW KW-0533:Nickel.
//
ID Copper or zinc.
AC CVME_0006
DE Annotate an amino acid residue that binds either a copper (Cu(2+)) or
DE a zinc (Zn(2+)) cation.
SY Zinc or copper.
KW KW-0186:Copper.
KW KW-0862:Zinc.
//
ID Divalent metal cation.
AC CVME_0007
DE Annotate an amino acid residue that binds an unspecified divalent
DE metal cation.
//
ID Iron.
AC CVME_0008
DE Annotate an amino acid residue that binds an iron (Fe(2+) or Fe(3+))
DE cation. Iron is a metal with the atomic number: 26.
SY Iron ion; Iron cation; Fe; Fe ion; Fe cation.
KW KW-0408:Iron.
//
ID Iron (heme 1 axial ligand).
AC CVME_0009
DE Annotate an amino acid residue that binds axially an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme 2 axial ligand).
AC CVME_0010
DE Annotate an amino acid residue that binds axially an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme A axial ligand).
AC CVME_0011
DE Annotate an amino acid residue that binds axially an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme A3 axial ligand).
AC CVME_0012
DE Annotate an amino acid residue that binds axially an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme axial ligand).
AC CVME_0013
DE Annotate an amino acid residue that binds axially an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme distal ligand).
AC CVME_0014
DE Annotate an amino acid residue that binds distally an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme proximal ligand).
AC CVME_0015
DE Annotate an amino acid residue that binds proximally an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme B axial ligand).
AC CVME_0036
DE Annotate an amino acid residue that binds axially an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme b562 axial ligand).
AC CVME_0016
DE Annotate an amino acid residue that binds axially an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron (heme b566 axial ligand).
AC CVME_0017
DE Annotate an amino acid residue that binds axially an iron (Fe(2+))
DE cation which is coordinated to the porphyrin group of an heme group.
KW KW-0349:Heme.
KW KW-0408:Iron.
//
ID Iron-sulfur (2Fe-2S).
AC CVME_0018
DE Annotate an amino acid residue that binds an iron atom in a 2Fe-2S
DE iron-sulfur complex which consist of two iron ions bridged by two
DE sulfide ions and coordinated by four ligands (Cys or His).
KW KW-0411:Iron-sulfur.
//
ID Iron-sulfur (3Fe-4S).
AC CVME_0031
DE Annotate an amino acid residue that binds an iron atom in a 3Fe-4S
DE iron-sulfur complex which consist of three iron ions bridged by four
DE sulfide ions and coordinated by three ligands (Cys or His).
KW KW-0411:Iron-sulfur.
//
ID Iron-sulfur (4Fe-4S).
AC CVME_0019
DE Annotate an amino acid residue that binds an iron atom in a 4Fe-4S
DE iron-sulfur complex which consist of four iron ions bridged by four
DE sulfide ions and coordinated by four ligands (Cys or His).
KW KW-0411:Iron-sulfur.
//
ID Iron-sulfur (4Fe-4S-S-AdoMet).
AC CVME_0020
DE Annotate an amino acid residue that binds an iron atom in a 4Fe-4S
DE iron-sulfur complex which consist of four iron ions bridged by four
DE sulfide ions and coordinated by four ligands (Cys or His).
KW KW-0411:Iron-sulfur.
//
ID Iron-sulfur (4Fe-4S-substrate).
AC CVME_0033
DE Annotate an amino acid residue that binds an iron atom in a 4Fe-4S
DE iron-sulfur complex which consist of four iron ions bridged by four
DE sulfide ions and coordinated by four ligands (Cys or His).
KW KW-0411:Iron-sulfur.
//
ID Iron or nickel.
AC CVME_0034
DE Annotate an amino acid residue that binds either an iron (Fe(2+) or Fe(3+))
DE cation or a nickel (Ni(2+)) cation.
KW KW-0408:Iron.
KW KW-0533:Nickel.
//
ID Iron or copper.
AC CVME_0035
DE Annotate an amino acid residue that binds either an iron (Fe(2+) or Fe(3+))
DE cation or a copper (Cu(2+)) cation.
KW KW-0408:Iron.
KW KW-0186:Copper.
//
ID Magnesium.
AC CVME_0021
DE Annotate an amino acid residue that binds a magnesium (Mg(+2)) cation.
DE Magnesium is an alkaline earth metal with the atomic number: 12.
SY Magnesium ion; Magnesium cation; Mg; Mg ion; Mg cation.
KW KW-0460:Magnesium.
//
ID Magnesium or calcium.
AC CVME_0022
DE Annotate an amino acid residue that binds either a magnesium (Mg(+2))
DE or a calcium (Ca(+2)) cation.
KW KW-0106:Calcium.
KW KW-0460:Magnesium.
//
ID Magnesium or manganese.
AC CVME_0023
DE Annotate an amino acid residue that binds either a magnesium (Mg(+2))
DE or a manganese (Mn(+2)) cation.
KW KW-0460:Magnesium.
KW KW-0464:Manganese.
//
ID Manganese.
AC CVME_0030
DE Annotate an amino acid residue that binds a manganese (Mn(+2)) cation.
DE Manganese is a metal with the atomic number: 25.
SY Manganese ion; Manganese cation; Mn; Mn ion; Mn cation.
KW KW-0464:Manganese.
//
ID Molybdenum.
AC CVME_0032
DE Annotate an amino acid residue that binds a molybdenum atom.
DE Molybdenum is a metal with the atomic number: 42.
SY Molybdenum ion; Molybdenum cation; Mo; Mo ion; Mo cation.
DR KW-0500:Molybdenum.
//
ID Molybdenum-pterin.
AC CVME_0024
DE Annotate an amino acid residue that binds a molybdenum atom coordinated
DE to the sulfur atoms of a pterin derivative (molybdopterin [MPT]).
SY Molybdopterin.
DR KW-0500:Molybdenum.
//
ID Nickel.
AC CVME_0025
DE Annotate an amino acid residue that binds a nickel (Ni(2+)) cation.
DE Nickel is a metal with the atomic number: 28.
SY Nickel ion; Nickel cation; Ni; Ni ion; Ni cation.
KW KW-0533:Nickel.
//
ID Potassium.
AC CVME_0026
DE Annotate an amino acid residue that binds a potassium (K(+)) cation.
DE Potassium is an alkaline earth metal with the atomic number: 19.
SY Potassium ion; Potassium cation; K; K ion; K cation.
KW KW-0630:Potassium.
//
ID Sodium.
AC CVME_0027
DE Annotate an amino acid residue that binds a sodium (Na(+)) cation.
DE Sodium is an alkaline earth metal with the atomic number: 11.
SY Sodium ion; Sodium cation; Na; Na ion; Na cation.
KW KW-0915:Sodium.
//
ID Zinc.
AC CVME_0028
DE Annotate an amino acid residue that binds a zinc (Zn(2+)) cation.
DE Zinc is a metal with the atomic number: 30.
SY Zinc ion; Zinc cation; Zn; Zn ion; Zn cation.
KW KW-0862:Zinc.
//
ID Zinc or iron.
AC CVME_0029
DE Annotate an amino acid residue that binds either a zinc (Zn(2+)) or an
DE iron (Fe(2+)) cation.
KW KW-0408:Iron.
KW KW-0862:Zinc.
//