format-version: 1.2
data-version: 32.0.
date: 22:02:2013 13:52
saved-by: midori
auto-generated-by: OBO-Edit 2.2
synonymtypedef: PRO-short-label "Unique short label for PRO terms for display purposes" EXACT
synonymtypedef: PSI-MOD-label "Unique short label curated by PSI-MOD" EXACT
default-namespace: protein
idspace: PR http://purl.obolibrary.org/obo/PR_
idspace: NCBITaxon http://purl.obolibrary.org/obo/NCBITaxon_
idspace: GO http://purl.obolibrary.org/obo/GO_
idspace: OBI http://purl.obolibrary.org/obo/OBI_
idspace: CHEBI http://purl.obolibrary.org/obo/CHEBI_
idspace: MOD http://purl.obolibrary.org/obo/MOD_
idspace: SO http://purl.obolibrary.org/obo/SO_
remark: Use reasoner in obo edit to see the correct hierarchy.
ontology: pr

[Term]
id: PR:000000001
name: protein
def: "An amino acid chain that is produced de novo by ribosome-mediated translation of a genetically-encoded mRNA." [PRO:DAN, PRO:WCB]
comment: Proteins descended from a common ancestor can be classified into families and superfamilies composed of products of evolutionarily-related genes. The domain architecture of a protein is described by the order of its constituent domains. Proteins with the same domains in the same order are defined as homeomorphic [PRO:WCB].
is_a: PR:000018263 ! amino acid chain

[Term]
id: PR:000002968
name: post-translationally modified amino-acid residue
def: "A modified amino-acid residue that was modified after its incorporation into an amino acid chain." [PRO:DAN]
comment: This includes any residue modification that occurs once translation has begun, and thus includes what are usually considered co-translational modifications.
synonym: "post-translationally modified amino acid chain residue" EXACT [PRO:DAN]
synonym: "post-translationally modified protein residue" NARROW [PRO:DAN]
is_a: PR:000025513 ! modified amino-acid residue

[Term]
id: PR:000003425
name: hsp70 family chaperone
def: "A protein that is a stand alone version of the Hsp70 protein (PF00012) domain, which comprises two major regions: an N-terminal ATP-binding domain and a C-terminal substrate-binding domain." [Pfam:PF00012, PRO:CNA]
comment: Category=family.
xref: PANTHER:PTHR19375
is_a: PR:000000001 ! protein

[Term]
id: PR:000003426
name: HSPA protein
def: "An hsp70 family chaperone that has its ATP-binding and substrate-binding domains separated by a linker domain of fewer than 25 amino acids." [PMID:18663603]
comment: Category=family.
synonym: "typical hsp70 protein" EXACT [PMID:18215318]
is_a: PR:000003425 ! hsp70 family chaperone

[Term]
id: PR:000010680
name: peptide methionine sulfoxide reductase
def: "A protein that is a translation product of the human MSRA gene or a 1:1 ortholog thereof." [PRO:DNx]
comment: Category=gene. Flag=automatic.
synonym: "MSRA" EXACT PRO-short-label [PRO:DNx]
synonym: "MXR1" RELATED []
synonym: "peptide Met(O) reductase" EXACT []
synonym: "peptide-methionine (S)-S-oxide reductase" EXACT []
synonym: "PMSR" EXACT []
synonym: "protein-methionine-S-oxide reductase" EXACT []
is_a: PR:000000001 ! protein

[Term]
id: PR:000016853
name: thioredoxin
def: "A protein that is a translation product of the human TXN gene or a 1:1 ortholog thereof." [PRO:DNx]
comment: Category=gene. Flag=automatic.
synonym: "ADF" RELATED []
synonym: "ATL-derived factor" EXACT []
synonym: "SASP" EXACT []
synonym: "surface-associated sulphydryl protein" EXACT []
synonym: "TRDX" RELATED []
synonym: "Trx" EXACT []
synonym: "TRX1" RELATED []
synonym: "TXN" EXACT PRO-short-label [PRO:DNx]
synonym: "Txn1" RELATED []
is_a: PR:000000001 ! protein

[Term]
id: PR:000018263
name: amino acid chain
def: "A polymer of amino acids linked by peptide bonds." [PRO:DAN]
synonym: "peptide" NARROW []
synonym: "polypeptide" NARROW []

[Term]
id: PR:000018264
name: proteolytic cleavage product
def: "An amino acid chain produced as the result of peptide bond cleavage of a longer amino acid chain." [PRO:DAN]
synonym: "peptide" NARROW []
synonym: "polypeptide" NARROW []
is_a: PR:000018263 ! amino acid chain

[Term]
id: PR:000021935
name: immature protein part
def: "A part of a protein that is removed during the protein maturation process." [PRO:DAN]
synonym: "cleaved_peptide_region" EXACT [SO:0100011]
relationship: part_of PR:000000001 ! protein

[Term]
id: PR:000024842
name: heat shock 70 kDa protein 1
def: "A protein that is a translation product of the closely-linked HSPA1A or HSPA1B genes or orthologs thereof." [PRO:DAN]
comment: Category=union.
synonym: "heat shock 70 kDa protein 1/2" EXACT []
synonym: "heat shock 70 kDa protein 1A/1B" EXACT []
synonym: "HSP70-1/HSP70-2" EXACT []
synonym: "HSP70.1/HSP70.2" EXACT []
is_a: PR:000003426 ! HSPA protein

[Term]
id: PR:000024854
name: P-factor precursor
def: "A protein that is a translation product of the fission yeast map2 gene or a 1:1 ortholog thereof. In Schizosaccharomyces pombe 972h-, proteolytic processing yeilds four peptides - two copies of P-factor 1 and one each of P-factor 2 and P-factor 3." [PMID:8314086, PRO:MSY]
comment: Category=gene. Requested by=PomBase.
synonym: "map2" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000000001 ! protein

[Term]
id: PR:000024855
name: P-factor
def: "A proteolytic cleavage product that is derived from P-factor precursor. In Schizosaccharomyces pombe 972h- the sequence is TYADFLRAYQSWNTFVNPDRPNL, corresponding to amino acids 66-88 or 134-156 of UniProtKB:Q09180-1." [PRO:MSY]
comment: Category=modification. Requested by=PomBase.
is_a: PR:000018264 ! proteolytic cleavage product
relationship: derives_from PR:000024854 ! P-factor precursor

[Term]
id: PR:000024856
name: P-factor-like 1
def: "A proteolytic cleavage product that is derived from P-factor precursor. In Schizosaccharomyces pombe 972h- the sequence is SYADFLRVYQSWNTFANPDRPNL, corresponding to amino acids 32-54 of UniProtKB:Q09180-2." [PRO:MSY]
comment: Category=modification. Requested by=PomBase.
is_a: PR:000018264 ! proteolytic cleavage product
relationship: derives_from PR:000024854 ! P-factor precursor

[Term]
id: PR:000024857
name: P-factor-like 2
def: "A proteolytic cleavage product that is derived from P-factor precursor. In Schizosaccharomyces pombe 972h- the sequence is SYADFLRAYHSWNTFVNPDRPNL, corresponding to amino acids 100-122 of UniProtKB:Q09180-3." [PRO:MSY]
comment: Category=modification. Requested by=PomBase.
is_a: PR:000018264 ! proteolytic cleavage product
relationship: derives_from PR:000024854 ! P-factor precursor

[Term]
id: PR:000024858
name: inactivated P-factor
def: "A proteolytic cleavage product derived from P-factor by removal of the C-terminal leucine residue." [PMID:10792724, PRO:MSY]
comment: Category=gene. Requested by=PomBase.
is_a: PR:000018264 ! proteolytic cleavage product
relationship: derives_from PR:000024855 ! P-factor

[Term]
id: PR:000025000
name: M-factor precursor
def: "A protein that is a translation product of the fission yeast mfm1, mfm2, or mfm3 genes or 1:1 orthologs thereof." [PRO:MSY]
comment: Category=union. Requested by=PomBase.
is_a: PR:000000001 ! protein
union_of: PR:000025003 ! M-factor precursor mfm1
union_of: PR:000025004 ! M-factor precursor mfm2
union_of: PR:000025005 ! M-factor precursor mfm3

[Term]
id: PR:000025001
name: M-factor
def: "A proteolytic cleavage product that is derived from propeptide removal from M-factor precursor, farnesylated 1. In Schizosaccharomyces pombe 972h- the sequence is YTPKVPYMC, with a farnesylated C-terminal residue." [PMID:1547790, PMID:8196631, PRO:MSY]
comment: Category=union. Requested by=PomBase.

[Term]
id: PR:000025002
name: M-factor precursor, farnesylated 1
def: "An M-factor precursor that is farnesylated at the C-terminal-most cysteine residue." [PRO:MSY]
comment: Category=modification. Requested by=PomBase.
is_a: PR:000024857 ! P-factor-like 2

[Term]
id: PR:000025003
name: M-factor precursor mfm1
def: "A protein that is a translation product of the fission yeast mfm1 gene or a 1:1 ortholog thereof." [PRO:MSY]
comment: Category=gene. Requested by=PomBase.
synonym: "mfm1" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000000001 ! protein

[Term]
id: PR:000025004
name: M-factor precursor mfm2
def: "A protein that is a translation product of the fission yeast mfm2 gene or a 1:1 ortholog thereof." [PRO:MSY]
comment: Category=gene. Requested by=PomBase.
synonym: "mfm2" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000000001 ! protein

[Term]
id: PR:000025005
name: M-factor precursor mfm3
def: "A protein that is a translation product of the fission yeast mfm3 gene or a 1:1 ortholog thereof." [PRO:MSY]
comment: Category=gene. Requested by=PomBase.
synonym: "mfm3" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000000001 ! protein

[Term]
id: PR:000025513
name: modified amino-acid residue
def: "An amino-acid residue that is covalently modified by chemical alteration to the side chain or backbone atoms." [PRO:DAN]
synonym: "modified amino acid chain residue" EXACT [PRO:DAN]
synonym: "modified protein residue" NARROW [PRO:DAN]

[Term]
id: PR:000027713
name: ribonucleoside-diphosphate reductase small chain
def: "A ribonucleoside-diphosphate reductase class I, small subunit that is a translation product of the fission yeast suc22 gene or a 1:1 ortholog thereof." [PMID:12867051, PMID:20516199, PomBase:MAH]
comment: Category=gene. Flag=automatic.
synonym: "Ribonucleotide reductase small subunit" EXACT []
synonym: "suc22" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000027717 ! ribonucleoside-diphosphate reductase class I, small subunit

[Term]
id: PR:000027714
name: ribonucleoside-diphosphate reductase small chain (fission yeast)
def: "A ribonucleoside-diphosphate reductase small chain that is encoded in the genome of fission yeast." [PMID:12867051, PMID:20516199, PomBase:MAH]
comment: Category=organism-gene. Flag=automatic.
synonym: "SPBC25D12.04" RELATED []
synonym: "Spom972h-suc22" EXACT PRO-short-label [PRO:DNx]
synonym: "SUC22" RELATED []
xref: UniProtKB:P36603

[Term]
id: PR:000027717
name: ribonucleoside-diphosphate reductase class I, small subunit
def: "A protein that is a stand-alone version of the Ribonucleotide reductase, small chain (PF00268) domain. This protein is the small subunit of the ribonucleotide reductase complex. The active subunit binds iron and contains an active site tyrosine radical." [PMID:15158709]
comment: Category=family.
synonym: "Ribonucleotide reductase small subunit" EXACT []
xref: PIRSF:PIRSF000355
is_a: PR:000000001 ! protein

[Term]
id: PR:000027718
name: ribonucleoside-diphosphate reductase large chain
def: "A protein that is a translation product of the fission yeast cdc22 gene or a 1:1 ortholog thereof." [PMID:14648198, PRO:CNA]
comment: Category=gene. Flag=automatic.
synonym: "cdc22" EXACT PRO-short-label [PRO:DNx]
synonym: "CDC22" RELATED []
synonym: "Ribonucleotide reductase" EXACT []
is_a: PR:000000001 ! protein

[Term]
id: PR:000027719
name: ribonucleoside-diphosphate reductase large chain (fission yeast)
def: "A ribonucleoside-diphosphate reductase large chain that is encoded in the genome of fission yeast." [PMID:14648198, PRO:CNA]
comment: Category=organism-gene. Flag=automatic.
synonym: "Spom972h-cdc22" EXACT PRO-short-label [PRO:DNx]
xref: UniProtKB:P36602

[Term]
id: PR:000027720
name: ribonucleoside-diphosphate reductase complex (fission yeast)
def: "A ribonucleoside-diphosphate reductase complex that is composed of two small (suc22) subunits and two large (cdc22) subunits." [PMID:20516199, PMID:8479429, PRO:CNA]
comment: Category=organism-complex. Requested by=PomBase.
synonym: "fission yeast ribonucleotide reductase complex" EXACT []
synonym: "fission yeast RNR" EXACT []
relationship: has_part PR:000027714 {cardinality="2"} ! ribonucleoside-diphosphate reductase small chain (fission yeast)
relationship: has_part PR:000027719 {cardinality="2"} ! ribonucleoside-diphosphate reductase large chain (fission yeast)

[Term]
id: PR:000027897
name: AP-1-like transcription factor
def: "A protein that is a translation product of the fission yeast pap1 gene or a 1:1 ortholog thereof." [PMID:15165244, PMID:1899230, PomBase:MAH]
comment: Category=gene. Flag=automatic.
synonym: "CAF3" RELATED []
synonym: "Caffeine resistance protein 3" EXACT []
synonym: "pap1" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000000001 ! protein

[Term]
id: PR:000027898
name: AP-1-like transcription factor (fission yeast)
def: "An AP-1-like transcription factor that is encoded in the genome of fission yeast." [PMID:15165244, PMID:1899230, PomBase:MAH]
comment: Category=organism-gene. Flag=automatic.
synonym: "SPAC1783.07C" RELATED []
synonym: "Spom972h-pap1" EXACT PRO-short-label [PRO:DNx]
xref: UniProtKB:Q01663

[Term]
id: PR:000028932
name: peroxiredoxin tpx1
def: "A protein that is a translation product of the fission yeast tpx1 gene or a 1:1 ortholog thereof." [PMID:22245228, PRO:CNA]
comment: Category=gene. Requested by=PomBase.
synonym: "Peroxiredoxin tsa1" EXACT []
synonym: "Thioredoxin peroxidase" EXACT []
synonym: "tpx1" EXACT PRO-short-label [PRO:DNx]
synonym: "TPX1" RELATED []
synonym: "TSA1" RELATED []
is_a: PR:000000001 ! protein

[Term]
id: PR:000028933
name: peroxiredoxin tpx1 reduced form
def: "A peroxiredoxin tpx1 that its peroxidatic cysteine is in the reduced state." [PMID:22245228, PRO:CNA]
comment: Category=modification.
synonym: "tpx1/Red+" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000028932 ! peroxiredoxin tpx1

[Term]
id: PR:000028934
name: peroxiredoxin tpx1 reduced form (fission yeast)
def: "A peroxiredoxin tpx1 reduced form in fission yeast." [PMID:22245228, PRO:CNA]
comment: Category=organism-modification. Requested by=PomBase.
synonym: "Spom972h-tpx1/Red+" EXACT PRO-short-label [PRO:DNx]

[Term]
id: PR:000028935
name: peroxiredoxin tpx1 hyperoxidized form
def: "A peroxiredoxin tpx1 that its peroxidatic Cys residue is hyperoxidized." [PMID:22245228, PRO:CNA]
comment: Category=modification. Flag=automatic.
synonym: "tpx1/HyperOx+" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000028932 ! peroxiredoxin tpx1

[Term]
id: PR:000028936
name: peroxiredoxin tpx1 hyperoxidized form (fission yeast)
def: "A peroxiredoxin tpx1 hyperoxidized form in fission yeast. The oxidation occurs in under oxidative stress." [PMID:22245228, PRO:CNA]
comment: Category=organism-modification. Requested by=PomBase.
synonym: "Spom972h-tpx1/HyperOx+" EXACT PRO-short-label [PRO:DNx]

[Term]
id: PR:000028937
name: AP-1-like transcription factor reduced form
def: "An AP-1-like transcription factor that its Cys residues are in the reduced state (as thiols)." [PRO:CNA]
comment: Category=modification.
synonym: "pap1/Red+" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000027897 ! AP-1-like transcription factor

[Term]
id: PR:000028938
name: AP-1-like transcription factor reduced form (fission yeast)
def: "An AP-1-like transcription factor reduced form in fission yeast." [PMID:22245228, PRO:CNA]
comment: Category=organism-modification. Requested by=PomBase.
synonym: "Spom972h-pap1/Red+" EXACT PRO-short-label [PRO:DNx]

[Term]
id: PR:000028939
name: AP-1-like transcription factor oxidized form
def: "An AP-1-like transcription factor that regulatory Cys residues are in the oxidized state (forming disulfide bonds)." [PMID:22245228, PRO:CNA]
comment: Category=modification.
synonym: "pap1/Ox+" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000027897 ! AP-1-like transcription factor

[Term]
id: PR:000028940
name: AP-1-like transcription factor oxidized form (fission yeast)
def: "An AP-1-like transcription factor oxidized form in fission yeast. This form is produced under oxidative stress." [PMID:22245228, PRO:CNA]
comment: Category=organism-modification. Requested by=PomBase.
synonym: "Spom972h-pap1/Ox+" EXACT PRO-short-label [PRO:DNx]

[Term]
id: PR:000028942
name: peptide methionine sulfoxide reductase reduced form
def: "A probable peptide methionine sulfoxide reductase that its regulatory Cys residues are in the reduced state." [PRO:CNA]
comment: Category=modification.
synonym: "MSRA/Red+" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000010680 ! peptide methionine sulfoxide reductase

[Term]
id: PR:000028943
name: peptide methionine sulfoxide reductase reduced form (fission yeast)
def: "A peptide methionine sulfoxide reductase reduced form that is encoded in the genome of fission yeast." [PMID:22245228, PRO:CNA]
comment: Category=organism-sequence. Requested by=PomBase.

[Term]
id: PR:000028944
name: peptide methionine sulfoxide reductase oxidized form
def: "A peptide methionine sulfoxide reductase that regulatory Cys residues are in the oxidized state." [PMID:22245228, PRO:CNA]
comment: Category=modification. Flag=automatic.
synonym: "MSRA/Ox+" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000010680 ! peptide methionine sulfoxide reductase

[Term]
id: PR:000028945
name: peptide methionine sulfoxide reductase oxidized form (fission yeast)
def: "A peptide methionine sulfoxide reductase oxidized form in fission yeast." [PMID:22245228, PRO:CNA]
comment: Category=organism-modification. Requested by=PomBase.
synonym: "Spom972h-MSRA/Ox+" EXACT PRO-short-label [PRO:DNx]

[Term]
id: PR:000028946
name: thioredoxin reduced form
def: "A thioredoxin that the Cys residues involved in dithiol-disulfide activity (CxxC motif) are in the reduced state." [PMID:22245228, PRO:CNA]
comment: Category=modification.
synonym: "Trx1-(SH)2" RELATED []
synonym: "TXN/Red+" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000016853 ! thioredoxin

[Term]
id: PR:000028947
name: thioredoxin-1 reduced form (fission yeast)
def: "A thioredoxin reduced form in fission yeast. The reduced Cys are Cys-30 and Cys-33 in UniProtKB:O14463." [PMID:22245228, PRO:CNA]
comment: Category=organism-modification. Requested by=PomBase.
synonym: "Spom972h-TXN/Red+" EXACT PRO-short-label [PRO:DNx]

[Term]
id: PR:000028948
name: thioredoxin oxidized form
def: "A thioredoxin that the Cys residues involved in dithiol-disulfide activity (CxxC motif) are forming disulfide bond." [PMID:22245228, PRO:CNA]
comment: Category=modification.
synonym: "Trx1-S2" RELATED []
synonym: "TXN/Ox+" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000016853 ! thioredoxin

[Term]
id: PR:000028949
name: thioredoxin-1 oxidized form (fission yeast)
def: "A thioredoxin oxidized form in fission yeast. The disulfide bond involves Cys-30 and Cys-33 in UniProtKB:O14463." [PMID:22245228, PRO:CNA]
comment: Category=organism-modification. Requested by=PomBase.
synonym: "Spom972h-TXN/Ox+" EXACT PRO-short-label [PRO:DNx]

[Term]
id: PR:000028950
name: peroxiredoxin tpx1 complex
def: "A protein complex that its a dimer of peroxiredoxin tpx1 linked by an interchain disulfide bond." [PMID:22245228, PRO:CNA]
comment: Category=complex. Flag=automatic.

[Term]
id: PR:000028951
name: peroxiredoxin tpx1 complex (fission yeast)
def: "A peroxiredoxin tpx1 complex in fission yeast." [PMID:22245228, PRO:CNA]
comment: Category=organism-complex. Requested by=PomBase.
is_a: PR:000028950 ! peroxiredoxin tpx1 complex
relationship: has_part PR:000028936 {cardinality="2"} ! peroxiredoxin tpx1 hyperoxidized form (fission yeast)

[Term]
id: PR:000029043
name: fission yeast protein
def: "A protein that is encoded in the genome of fission yeast." [PRO:DAN]
synonym: "Spom972h protein" EXACT PRO-short-label []