Conclusion
Assessment
Binding Mode
Motif Status
Notes
Comments
Likely to be sequence specific TF
1 Monomer or homomultimer
No motif
Single C2H2 domain
Has a single C2H2 ZF (PMID: 10931850).
Description
Description:
Protein arginine methyltransferase 3 [Source:HGNC Symbol;Acc:HGNC:30163]
Entrez Summary
#!usr/local/bin/perl
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This gene belongs to the protein arginine methyltransferase (PRMT)
family. The encoded enzyme catalyzes the methylation of guanidino nitrogens
of arginyl residues of proteins. The enzyme acts on 40S ribosomal protein S2
(rpS2), which is its major in-vivo substrate, and is involved in the proper
maturation of the 80S ribosome. Alternative splicing results in multiple
transcript variants. [provided by RefSeq, Aug 2013]
Ensembl ID:
ENSG00000185238
External Link:
CisBP
Interpro
IPR007087 ; IPR025799 ; IPR029063 ; ;
Protein Domain:
ENSP00000331879
Protein Domain:
ENSP00000397766
Domain:
Protein: ENSP00000331879DBD: OtherOther: FtsJ, MTS, Met_10, Methyltransf_11, Methyltransf_1Protein: ENSP00000397766DBD: OtherOther: FtsJ, MTS, Met_10, Methyltransf_11, Methyltransf_1
Previous Annotations
Source
Annotation
TF-CAT classification
No PMIDS:
Vaquerizas 2009 TF classification
"a " Has direct evidence of TF function;
"b " Has evidence for an orthologous TF;
"c " contains likely DBDs, but has no functional evidence;
"x " is an unlikely TF such as predicted gene, genes with likely non-specific DBDs or that have function outside transcription;
"other " category contains proteins without clear DBDs they curated from external sources.
x
CisBP considers it as a TF?
No
TFclass considers it as a TF?
No
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding"
No
GO-Info
Initial Assessment
1a1 Protein has a high confidence PWM (HT-SELEX, PBM or B1H model) or there is a crystal structure that supports sequence specific DNA binding;
1a2 There is high confidence data for a close ortholog (as defined in CisBP);
2a1 There is lower confidence direct evidence, such as a Jaspar, Hocomoco or Transfac model;
2a2 There is lower confidence evidence for an close ortholog;
3a There is decent circumstantial evidence for its role as a TF or not;
4a Two or more datasets predict it as a TF;
5a One of the source datasets predicts is as a TF
5a, one of the source datasets predicts is as a TF
TF has conditional DNA-binding requirements
DNA-Binding
Published Motif Data
Structure
Experimental History
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It also includes two putative methyltransferase proteins, Swiss:Q8EEE6 and Swiss:Q88MX8.", "database": "PfamA", "aliStart": 240, "scoreName": "E-value", "accession": "PF08003.9", "start": 164, "score": 7.2e-09, "identifier": "Protein of unknown function (DUF1698)", "type": "DBD", "aliEnd": 358}}, {"startStyle": "straight", "end": 398, "endStyle": "jagged", "aliStart": 255, "text": "Methyltransf_31", "colour": "#9999ff", "aliEnd": 356, "start": 253, "href": "http://pfam.xfam.org/family/PF13847.4", "type": "pfama", "display": "true", "metadata": {"end": 398, "description": "This family appears to have methyltransferase activity.", "database": "PfamA", "aliStart": 255, "scoreName": "E-value", "accession": "PF13847.4", "start": 253, "score": 1.8999999999999998e-08, "identifier": "Methyltransferase domain", "type": "DBD", "aliEnd": 356}}, {"startStyle": "straight", "end": 359, "endStyle": "straight", "aliStart": 260, "text": "Methyltransf_11", "colour": "#9999ff", "aliEnd": 356, "start": 260, "href": "http://pfam.xfam.org/family/PF08241.10", "type": "pfama", "display": "true", "metadata": {"end": 359, "description": "Members of this family are SAM dependent methyltransferases.", "database": "PfamA", "aliStart": 260, "scoreName": "E-value", "accession": "PF08241.10", "start": 260, "score": 3.3e-08, "identifier": "Methyltransferase domain", "type": "DBD", "aliEnd": 356}}, {"startStyle": "jagged", "end": 511, "endStyle": "straight", "aliStart": 235, "text": "PRMT5", "colour": "#9999ff", "aliEnd": 503, "start": 215, "href": "http://pfam.xfam.org/family/PF05185.14", "type": "pfama", "display": "true", "metadata": {"end": 511, "description": "The human homologue of yeast Skb1 (Shk1 kinase-binding protein 1) is PRMT5, an arginine-N-methyltransferase [3][4]. 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However, homologous proteins have been found in yeast (Swiss:P38793) suggesting this protein may be involved in methionine biosynthesis, transport and/or utilisation [1].", "database": "PfamA", "aliStart": 255, "scoreName": "E-value", "accession": "PF02475.14", "start": 238, "score": 0.00025, "identifier": "Met-10+ like-protein", "type": "DBD", "aliEnd": 333}}, {"startStyle": "straight", "end": 100, "endStyle": "jagged", "aliStart": 50, "text": "zf-C2H2_2", "colour": "#9999ff", "aliEnd": 80, "start": 47, "href": "http://pfam.xfam.org/family/PF12756.5", "type": "pfama", "display": "true", "metadata": {"end": 100, "description": "This family contains two copies of a C2H2-like zinc finger domain.", "database": "PfamA", "aliStart": 50, "scoreName": "E-value", "accession": "PF12756.5", "start": 47, "score": 0.0003, "identifier": "C2H2 type zinc-finger (2 copies)", "type": "DBD", "aliEnd": 80}}, {"startStyle": "straight", "end": 358, "endStyle": "straight", "aliStart": 260, "text": "Methyltransf_12", "colour": "#9999ff", "aliEnd": 356, "start": 260, "href": "http://pfam.xfam.org/family/PF08242.10", "type": "pfama", "display": "true", "metadata": {"end": 358, "description": "Members of this family are SAM dependent methyltransferases.", "database": "PfamA", "aliStart": 260, "scoreName": "E-value", "accession": "PF08242.10", "start": 260, "score": 0.0005200000000000001, "identifier": "Methyltransferase domain", "type": "DBD", "aliEnd": 356}}, {"startStyle": "straight", "end": 390, "endStyle": "jagged", "aliStart": 252, "text": "FtsJ", "colour": "#9999ff", "aliEnd": 314, "start": 234, "href": "http://pfam.xfam.org/family/PF01728.17", "type": "pfama", "display": "true", "metadata": {"end": 390, "description": "This family consists of FtsJ from various bacterial and archaeal sources FtsJ is a methyltransferase, but actually has no effect on cell division. 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{"regions": [{"startStyle": "jagged", "end": 284, "endStyle": "jagged", "aliStart": 193, "text": "PrmA", "colour": "#9999ff", "aliEnd": 266, "start": 186, "href": "http://pfam.xfam.org/family/PF06325.11", "type": "pfama", "display": "true", "metadata": {"end": 284, "description": "This family consists of several Ribosomal protein L11 methyltransferase (EC:2.1.1.-) sequences.", "database": "PfamA", "aliStart": 193, "scoreName": "E-value", "accession": "PF06325.11", "start": 186, "score": 5.3e-11, "identifier": "Ribosomal protein L11 methyltransferase (PrmA)", "type": "DBD", "aliEnd": 266}}, {"startStyle": "straight", "end": 294, "endStyle": "straight", "aliStart": 197, "text": "Methyltransf_25", "colour": "#9999ff", "aliEnd": 294, "start": 197, "href": "http://pfam.xfam.org/family/PF13649.4", "type": "pfama", "display": "true", "metadata": {"end": 294, "description": "This family appears to be a methyltransferase domain.", "database": "PfamA", "aliStart": 197, "scoreName": "E-value", "accession": "PF13649.4", "start": 197, "score": 5.9e-11, "identifier": "Methyltransferase domain", "type": "DBD", "aliEnd": 294}}, {"startStyle": "jagged", "end": 330, "endStyle": "jagged", "aliStart": 178, "text": "Methyltransf_9", "colour": "#9999ff", "aliEnd": 296, "start": 100, "href": "http://pfam.xfam.org/family/PF08003.9", "type": "pfama", "display": "true", "metadata": {"end": 330, "description": "This family contains many hypothetical proteins. 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FtsJ's substrate is the 23S rRNA. The 1.5 A crystal structure of FtsJ in complex with its cofactor S-adenosylmethionine revealed that FtsJ has a methyltransferase fold. This family also includes the N terminus of flaviviral NS5 protein. It has been hypothesised that the N-terminal domain of NS5 is a methyltransferase involved in viral RNA capping [2].", "database": "PfamA", "aliStart": 190, "scoreName": "E-value", "accession": "PF01728.17", "start": 171, "score": 0.0022, "identifier": "FtsJ-like methyltransferase", "type": "DBD", "aliEnd": 252}}, {"startStyle": "straight", "end": 307, "endStyle": "jagged", "aliStart": 171, "text": "TehB", "colour": "#9999ff", "aliEnd": 277, "start": 165, "href": "http://pfam.xfam.org/family/PF03848.12", "type": "pfama", "display": "true", "metadata": {"end": 307, "description": NaN, "database": "PfamA", "aliStart": 171, "scoreName": "E-value", "accession": "PF03848.12", "start": 165, "score": 0.0077, "identifier": "Tellurite resistance protein TehB", "type": "DBD", "aliEnd": 277}}], "length": 470}