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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TRMT61B Gene

protein-coding   GIFtS: 42
GCID: GC02M029072

TRNA Methyltransferase 61 Homolog B (S. Cerevisiae)

  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
TRNA Methyltransferase 61 Homolog B (S. Cerevisiae)1 2
Potential TRNA (Adenine(58)-N(1))-Methyltransferase Catalytic Subunit
TRMT61B2
Potential TRNA (Adenine-N(1)-)-Methyltransferase Catalytic Subunit TRMT61B2
TRNA (Adenine(58)-N(1))-Methyltransferase, Mitochondrial2
EC 2.1.1.2203

External Ids:    HGNC: 260701   Entrez Gene: 550062   Ensembl: ENSG000001711037   UniProtKB: Q9BVS53   

Export aliases for TRMT61B gene to outside databases

Previous GC identifers: GC02M028926 GC02M028814


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for TRMT61B Gene: 
TRMT61B (tRNA methyltransferase 61 homolog B (S. cerevisiae)) is a protein-coding gene. Diseases associated with TRMT61B include tuberculosis. GO annotations related to this gene include tRNA (adenine-N1-)-methyltransferase activity and protein binding.

UniProtKB/Swiss-Prot: TR61B_HUMAN, Q9BVS5
Function: Methyltransferase that catalyzes the formation of N(1)-methyladenine at position 58 (m1A58) in various
tRNAs in mitochondrion, including tRNA(Leu) (decephering codons UUA or UUG), tRNA(Lys) and tRNA(Ser) (decephering
codons UCA, UCU, UCG or UCC)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000002.11  NT_022184.15  NC_018913.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TRMT61B gene promoter:
         ATF-2   CUTL1   HNF-1A   CREB   POU2F1   POU2F1b   POU2F1a   deltaCREB   HNF-1   POU2F1c   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for TRMT61B

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRMT61B


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 2p23.2   Ensembl cytogenetic band:  2p23.2   HGNC cytogenetic band: 2p23.2

TRMT61B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRMT61B gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02M029072:  view genomic region     (about GC identifiers)

Start:
29,072,687 bp from pter      End:
29,093,175 bp from pter
Size:
20,489 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: TR61B_HUMAN, Q9BVS5 (See protein sequence)
Recommended Name: tRNA (adenine(58)-N(1))-methyltransferase, mitochondrial precursor  
Size: 477 amino acids; 52965 Da
Subunit: Homooligomer; in contrast to TRMT61A, does not for a heterotetramer
Subcellular location: Mitochondrion
1 PDB 3D structure from and Proteopedia for TRMT61B:
2B25 (3D)    
Secondary accessions: Q9H0Q9 Q9NWS7

Explore the universe of human proteins at neXtProt for TRMT61B: NX_Q9BVS5

Explore proteomics data for TRMT61B at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9BVS5

  • TRMT61B Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TRMT61B Protein Expression
    REFSEQ proteins: NP_060380.3  
    ENSEMBL proteins: 
     ENSP00000405467   ENSP00000302801   ENSP00000389617  

    Human Recombinant Protein Products for TRMT61B: 
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    Browse Sino Biological Cell Lysates 
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    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005739mitochondrion IDA--
    GO:0031515tRNA (m1A) methyltransferase complex IEA--

    TRMT61B for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR014816 tRNA_MeTrfase_GCD14

    Graphical View of Domain Structure for InterPro Entry Q9BVS5

    ProtoNet protein and cluster: Q9BVS5

    UniProtKB/Swiss-Prot: TR61B_HUMAN, Q9BVS5
    Similarity: Belongs to the methyltransferase superfamily. TRM61 family


    TRMT61B for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TR61B_HUMAN, Q9BVS5
    Function: Methyltransferase that catalyzes the formation of N(1)-methyladenine at position 58 (m1A58) in various
    tRNAs in mitochondrion, including tRNA(Leu) (decephering codons UUA or UUG), tRNA(Lys) and tRNA(Ser) (decephering
    codons UCA, UCU, UCG or UCC)
    Catalytic activity: S-adenosyl-L-methionine + adenine(58) in tRNA = S-adenosyl-L-homocysteine +
    N(1)-methyladenine(58) in tRNA

         Enzyme Number (IUBMB): EC 2.1.1.2201

         Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004719protein-L-isoaspartate (D-aspartate) O-methyltransferase activity ----
    GO:0005515protein binding IPI--
    GO:0016429tRNA (adenine-N1-)-methyltransferase activity IDA--
         
    TRMT61B for ontologies           About GeneDecksing


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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRMT61B

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    4 Interacting proteins for TRMT61B (Q9BVS51, 3 ENSP000003028014) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    IRF7Q929851, 3, ENSP000003294114EBI-3197877,EBI-968267 I2D: score=1 STRING: ENSP00000329411
    SQSTM1Q135013I2D: score=3 
    TRMT61AENSP000003743994STRING: ENSP00000374399
    PPP2CBENSP000002211384STRING: ENSP00000221138
    About this table

    Gene Ontology (GO): 4 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006464cellular protein modification process ----
    GO:0030488tRNA methylation ----
    GO:0051260protein homooligomerization IDA--
    GO:0070901mitochondrial tRNA methylation IDA--

    TRMT61B for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TRMT61B (TR61B)

    1 HMDB Compound for TRMT61B    About this table
    CompoundSynonyms CAS #PubMed Ids
    S-Adenosylmethionine(3S)-5'-[(3-amino-3-carboxypropyl)methylsulfonio]-5'-deoxyadenosine (see all 16)29908-03-0--

    Search CenterWatch for drugs/clinical trials and news about TRMT61B / TR61B

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TRMT61B gene: 
    NM_017910.3  

    Unigene Cluster for TRMT61B:

    TRNA methyltransferase 61 homolog B (S. cerevisiae)
    Hs.468026  [show with all ESTs]
    Unigene Representative Sequence: AK225551
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000419999 ENST00000306108(uc002rmm.3) ENST00000439947 ENST00000490390
    ENST00000484060
    miRNA
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    Additional mRNA sequence: 

    AK225551.1 AK308821.1 AL136689.1 BC000952.1 BC010365.1 

    15 DOTS entries:

    DT.100788641  DT.313043  DT.100712294  DT.97777029  DT.100788640  DT.40111965  DT.445619  DT.92437456 
    DT.100788644  DT.100806312  DT.92437458  DT.100788646  DT.120950900  DT.92062292  DT.95268879 

    24/141 AceView cDNA sequences (see all 141):

    CR612345 AI016771 AI168370 BM716811 CR620335 AW058577 AL136689 AI950840 
    AA581709 BM720387 AI866119 CR624779 CR610767 AA232694 AI159940 BE645126 
    AA772380 AA236489 AI624073 CB241756 BE463482 AA897336 BM681807 AA883674 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for TRMT61B    About this scheme

    ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4 ^ 5
    SP1:                          -                           
    SP2:                                                      
    SP3:                                -                     
    SP4:                    -     -                           


    ECgene alternative splicing isoforms for TRMT61B

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    TRMT61B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AAGAATCGCA
    TRMT61B Expression
    About this image


    See TRMT61B Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TRMT61B

    SOURCE GeneReport for Unigene cluster: Hs.468026
        SABiosciences Custom PCR Arrays for TRMT61B
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    In Situ
    Assay Products:
     

     
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for TRMT61B gene from 5/9 species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    dog
    (Canis familiaris)
    Mammalia TRMT61B1 tRNA methyltransferase 61 homolog B (S. cerevisiae) 80.84(n)
    71.79(a)
      483017  XM_540132.3  XP_540132.3 
    chicken
    (Gallus gallus)
    Aves TRMT61B6
    Uncharacterized protein
    61(a)
    1 ↔ 1
    3(8512199-8518246)
    lizard
    (Anolis carolinensis)
    Reptilia TRMT61B6
    Uncharacterized protein
    47(a)
    1 ↔ 1
    1(248303365-248309673)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.147442 Transcribed sequence with weak similarity to protein more 74.74(n)    BX746860.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC1000032051 potential tRNA (adenine-N(1)-)-methyltransferase catalytic more 52.87(n)
    43.97(a)
      100003205  XM_001337462.4  XP_001337498.2 


    ENSEMBL Gene Tree for TRMT61B (if available)
    TreeFam Gene Tree for TRMT61B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/479 SNPs in TRMT61B are shown (see all 479)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 2 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2006779311,2
    --29074032(+) TTTTGA/GGCTAA 2 A syn10--------
    rs1482290611,2
    C,F--29074121(+) AAGTTC/TACAGG 2 K E mis12Minor allele frequency- T:0.00NA EU 5839
    rs1498527671,2
    C--29074129(+) AGGTGC/TGAATT 2 H R mis10--------
    rs1508901241,2
    C,F--29074141(+) CATCTA/GAAAGT 2 S L mis12Minor allele frequency- G:0.00NA EU 5695
    rs2019085911,2
    --29074177(+) AAAAGC/TGAAAA 1 -- int10--------
    rs1137832001,2
    C,F--29074256(+) AATACC/TATAGT 1 -- int13Minor allele frequency- T:0.04CSA WA 123
    rs1166721071,2
    F--29074479(+) CGTGGG/CTCACG 1 -- int11Minor allele frequency- C:0.09WA 118
    rs1839732671,2
    --29074492(+) TGTAAC/TCCCAG 1 -- int10--------
    rs1876046691,2
    --29074602(+) TAGCCA/GGGTGT 1 -- int10--------
    rs1908296741,2
    C--29074688(+) TGCAGC/TGAGCT 1 -- int10--------

    HapMap Linkage Disequilibrium report for TRMT61B (29072687 - 29093175 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for TRMT61B:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2674264CNV Deletion23128226
    esv29033CNV Loss19812545
    nsv819532CNV Loss19587683
    nsv817695CNV Gain17921354
    nsv518751CNV Gain19592680

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for TRMT61B:    About MalaCards
    tuberculosis    


    TRMT61B for disorders           About GeneDecksing


    Export disorders for TRMT61B gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for TRMT61B gene, integrated from 9 sources (see all 11):
    (articles sorted by number of sources associating them with TRMT61B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (2001)
    2. Trmt61B is a methyltransferase responsible for 1-methyladenosine at position 58 of human mitochondrial tRNAs. (PubMed id 23097428)1, 2 Chujo T. and Suzuki T. (2012)
    3. Mapping a dynamic innate immunity protein interaction network regulating type I interferon production. (PubMed id 21903422)1 Li S....Dorf M.E. (2011)
    4. Toward an understanding of the protein interaction net work of the human liver. (PubMed id 21988832)1 Wang J....Yang X. (2011)
    5. Network organization of the human autophagy system. (PubMed id 20562859)1 Behrends C....Harper J.W. (2010)
    6. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
    7. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W....Wilson R.K. (2005)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    9. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    10. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 55006 HGNC: 26070 AceView: FLJ20628 Ensembl:ENSG00000171103 euGenes: HUgn55006
    ECgene: TRMT61B H-InvDB: TRMT61B

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for TRMT61B Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TRMT61B gene:
    Search GeneIP for patents involving TRMT61B

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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