UNIPROTKB {UniProt.ws} | R Documentation

## Descriptions of available values for `columns` and `keytypes`.

### Description

This manual page enumerates the kinds of data represented by the values returned when the user calls `columns` or `keytypes`

### Details

All the possible values for `columns` and `keytypes` are listed below. Users will have to actually use these methods to learn which of the following possible values actually apply in their case.

:UNIPROTKB

  The central ID for UniProt and swissprot

:UNIPARC

  UniParc

:UNIREF50

  UniRef50

:UNIREF90

  UniRef90

:UNIREF100

  UniRef100

:EMBL/GENBANK/DDBJ

  EMBL/GenBank/DDBJ

:EMBL/GENBANK/DDBJ_CDS

  EMBL/GenBank/DDBJ CDS

:PIR

  PIR

:ENTREZ_GENE

  Entrez Gene (GeneID)

:GI_NUMBER*

  GI number

:IPI

  IPI

:REFSEQ_PROTEIN

  RefSeq Protein

:REFSEQ_NUCLEOTIDE

  RefSeq Nucleotide

:PDB

  PDB

:DISPROT

  DisProt

:HSSP

  HSSP

:DIP

  DIP

:MINT

  MINT

:ALLERGOME

  Allergome

:MEROPS

  MEROPS

:PEROXIBASE

  PeroxiBase

:PPTASEDB

  PptaseDB

:REBASE

  REBASE

:TCDB

  TCDB

:PHOSSITE

  PhosSite

:DMDM

  DMDM

:AARHUS/GHENT-2DPAGE

  Aarhus/Ghent-2DPAGE

:ECO2DBASE

  ECO2DBASE

:WORLD-2DPAGE

  World-2DPAGE

:DNASU

  DNASU

:ENSEMBL

  Ensembl

:ENSEMBL_PROTEIN

  Ensembl Protein

:ENSEMBL_TRANSCRIPT

  Ensembl Transcript

:ENSEMBL_GENOMES

  Ensembl Genomes

:ENSEMBL_GENOMES PROTEIN

  Ensembl Genomes Protein

:ENSEMBL_GENOMES TRANSCRIPT

  Ensembl Genomes Transcript

:KEGG

  KEGG

:PATRIC

  PATRIC

:TIGR

  TIGR

:UCSC

  UCSC

:VECTORBASE

  VectorBase

:AGD

  AGD

:ARACHNOSERVER

  ArachnoServer

:CGD

  CGD

:CONOSERVER

  ConoServer

:CYGD

  CYGD

:DICTYBASE

  dictyBase

:ECHOBASE

  EchoBASE

:ECOGENE

  EcoGene

:EUHCVDB

  euHCVdb

:EUPATHDB

  EuPathDB

:FLYBASE

  FlyBase

:GENECARDS

  GeneCards

:GENEFARM

  GeneFarm

:GENOLIST

  GenoList

:H-INVDB

  H-InvDB

:HGNC

  HGNC

:HPA

  HPA

:LEGIOLIST

  LegioList

:LEPROMA

  Leproma

:MAIZEGDB

  MaizeGDB

:MIM

  MIM

:MGI

  MGI

:NEXTPROT

  neXtProt

:ORPHANET

  Orphanet

:PHARMGKB

  PharmGKB

:POMBASE

  PomBase

:PSEUDOCAP

  PseudoCAP

:RGD

  RGD

:SGD

  SGD

:TAIR

  TAIR

:TUBERCULIST

  TubercuList

:WORMBASE

  WormBase

:WORMBASE_TRANSCRIPT

  WormBase Transcript

:WORMBASE_PROTEIN

  WormBase Protein

:XENBASE

  Xenbase

:ZFIN

  ZFIN

:EGGNOG

  eggNOG

:GENETREE

  GeneTree

:HOVERGEN

  HOVERGEN

:KO

  KO

:OMA

  OMA

:ORTHODB

  OrthoDB

:PROTCLUSTDB

  ProtClustDB

:BIOCYC

  BioCyc

:REACTOME

  Reactome

:UNIPATHWAY

  UniPathWay

:CLEANEX

  CleanEx

:GERMONLINE

  GermOnline

:DRUGBANK

  DrugBank

:GENOMERNAI

  GenomeRNAi

:NEXTBIO

  NextBio

:CITATION

  citations

:CLUSTERS

  clusters

:COMMENTS

  comments

:DOMAINS

  domains

:DOMAIN

  domain

:EC

  ec ID

:ID

  ID

:EXISTENCE

  existence

:FAMILIES

  families

:FEATURES

  features

:GENES

  genes

:GO

  go term

:GO-ID

  go id

:INTERPRO

  interpro

:INTERACTOR

  interactor

:KEYWORDS

  keywords

:KEYWORD-ID

  keyword-id

:LAST-MODIFIED

  last-modified

:LENGTH

  length

:ORGANISM

  organism

:ORGANISM-ID

  organism-id

:PATHWAY

  pathway

:PROTEIN NAMES

  protein names

:REVIEWED

  reviewed

:SCORE

  score

:SEQUENCE

  sequence

:3D

  3d

:TAXON

  taxon

:TOOLS

  tools

:VERSION

  version

:DATABASE(PFAM)

  PFAM ids

:DATABASE(PDB)

  PDB ids

:

### Author(s)

Marc Carlson

### Examples

      up <- UniProt.ws(taxId=9606)
      ## List the possible values for columns
      columns(up)
      ## List the possible values for keytypes
      keytypes(up)
      ## get some values back
      ## list all possible keys of type entrez gene ID.
      ## (this process is not instantaneous)
      if(interactive()){
        keys <- head(keys(up, keytype="UNIPROTKB"))
        keys
      }
      select(up, keys=c("P31946","P62258"), columns=c("PDB","SEQUENCE"),
      keytype="UNIPROTKB")

[Package UniProt.ws version 2.30.0 Index]