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O14717 (TRDMT_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 123. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (6) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
tRNA (cytosine(38)-C(5))-methyltransferase

EC=2.1.1.204
Alternative name(s):
DNA (cytosine-5)-methyltransferase-like protein 2
Short name=Dnmt2
DNA methyltransferase homolog HsaIIP
Short name=DNA MTase homolog HsaIIP
Short name=M.HsaIIP
PuMet
Gene names
Name:TRDMT1
Synonyms:DNMT2
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length391 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Specifically methylates cytosine 38 in the anticodon loop of tRNA(Asp). Ref.9

Catalytic activity

S-adenosyl-L-methionine + cytosine38 in tRNA = S-adenosyl-L-homocysteine + 5-methylcytosine38 in tRNA. Ref.9

Subcellular location

Nucleus Probable.

Tissue specificity

Ubiquitous. Higher expression in testis, ovary and thymus and at much lower levels in spleen, prostate, colon, small intestine, and peripheral blood leukocytes.

Sequence similarities

Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.

Contains 1 SAM-dependent MTase C5-type domain.

Alternative products

This entry describes 6 isoforms produced by alternative splicing. [Align] [Select]

Note: Additional isoforms seem to exist.
Isoform A (identifier: O14717-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Isoform B (identifier: O14717-2)

The sequence of this isoform differs from the canonical sequence as follows:
     84-107: Missing.
Isoform C (identifier: O14717-3)

The sequence of this isoform differs from the canonical sequence as follows:
     84-129: Missing.
Isoform D (identifier: O14717-4)

The sequence of this isoform differs from the canonical sequence as follows:
     59-63: GITLE → DWPAG
     64-391: Missing.
Isoform E (identifier: O14717-5)

The sequence of this isoform differs from the canonical sequence as follows:
     59-71: GITLEEFDRLSFD → ITKITKVYSFGKC
     72-391: Missing.
Isoform F (identifier: O14717-6)

The sequence of this isoform differs from the canonical sequence as follows:
     59-107: GITLEEFDRL...SFLHILDILP → RPLDTNNRKL...SVRAITLSSP
     108-391: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 391391tRNA (cytosine(38)-C(5))-methyltransferase
PRO_0000088040

Regions

Domain4 – 391388SAM-dependent MTase C5-type

Sites

Active site791 By similarity

Natural variations

Alternative sequence59 – 10749GITLE…LDILP → RPLDTNNRKLWLSVPRVYII SNLSWHSKFKATIFSYCKAS VRAITLSSP in isoform F.
VSP_005634
Alternative sequence59 – 7113GITLE…RLSFD → ITKITKVYSFGKC in isoform E.
VSP_005632
Alternative sequence59 – 635GITLE → DWPAG in isoform D.
VSP_005630
Alternative sequence64 – 391328Missing in isoform D.
VSP_005631
Alternative sequence72 – 391320Missing in isoform E.
VSP_005633
Alternative sequence84 – 12946Missing in isoform C.
VSP_005629
Alternative sequence84 – 10724Missing in isoform B.
VSP_005628
Alternative sequence108 – 391284Missing in isoform F.
VSP_005635
Natural variant1011H → Y. Ref.7
Corresponds to variant rs11254413 [ dbSNP | Ensembl ].
VAR_051961

Experimental info

Sequence conflict1481L → I in AAC39764. Ref.3

Secondary structure

...................................................... 391
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform A [UniParc].

Last modified January 1, 1998. Version 1.
Checksum: BCA549E4EB2E6950

FASTA39144,597
        10         20         30         40         50         60 
MEPLRVLELY SGVGGMHHAL RESCIPAQVV AAIDVNTVAN EVYKYNFPHT QLLAKTIEGI 

        70         80         90        100        110        120 
TLEEFDRLSF DMILMSPPCQ PFTRIGRQGD MTDSRTNSFL HILDILPRLQ KLPKYILLEN 

       130        140        150        160        170        180 
VKGFEVSSTR DLLIQTIENC GFQYQEFLLS PTSLGIPNSR LRYFLIAKLQ SEPLPFQAPG 

       190        200        210        220        230        240 
QVLMEFPKIE SVHPQKYAMD VENKIQEKNV EPNISFDGSI QCSGKDAILF KLETAEEIHR 

       250        260        270        280        290        300 
KNQQDSDLSV KMLKDFLEDD TDVNQYLLPP KSLLRYALLL DIVQPTCRRS VCFTKGYGSY 

       310        320        330        340        350        360 
IEGTGSVLQT AEDVQVENIY KSLTNLSQEE QITKLLILKL RYFTPKEIAN LLGFPPEFGF 

       370        380        390 
PEKITVKQRY RLLGNSLNVH VVAKLIKILY E 

« Hide

Isoform B [UniParc].

Checksum: 3801D5651DBC2614
Show »

FASTA36741,858
Isoform C [UniParc].

Checksum: 65939D1BE01D958B
Show »

FASTA34539,313
Isoform D [UniParc].

Checksum: 3DBEA06674461233
Show »

FASTA636,965
Isoform E [UniParc].

Checksum: 862BC392F37BFA8C
Show »

FASTA717,908
Isoform F [UniParc].

Checksum: BDD5DD4DC6D6BD3E
Show »

FASTA10712,087

References

« Hide 'large scale' references
[1]"A candidate mammalian DNA methyltransferase related to pmt1p of fission yeast."
Yoder J.A., Bestor T.H.
Hum. Mol. Genet. 7:279-284(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A).
[2]"Cloning and analysis of a novel human putative DNA methyltransferase."
Van den Wyngaert I., Sprengel J., Kass S.U., Luyten W.H.M.L.
FEBS Lett. 426:283-289(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A).
[3]"Dnmt2 is not required for de novo and maintenance methylation of viral DNA in embryonic stem cells."
Okano M., Xie S., Li E.
Nucleic Acids Res. 26:2536-2540(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A).
Tissue: Heart.
[4]NHLBI resequencing and genotyping service (RS&G)
Submitted (FEB-2007) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[5]"The DNA sequence and comparative analysis of human chromosome 10."
Deloukas P., Earthrowl M.E., Grafham D.V., Rubenfield M., French L., Steward C.A., Sims S.K., Jones M.C., Searle S., Scott C., Howe K., Hunt S.E., Andrews T.D., Gilbert J.G.R., Swarbreck D., Ashurst J.L., Taylor A., Battles J. expand/collapse author list , Bird C.P., Ainscough R., Almeida J.P., Ashwell R.I.S., Ambrose K.D., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Bates K., Beasley H., Bray-Allen S., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Cahill P., Camire D., Carter N.P., Chapman J.C., Clark S.Y., Clarke G., Clee C.M., Clegg S., Corby N., Coulson A., Dhami P., Dutta I., Dunn M., Faulkner L., Frankish A., Frankland J.A., Garner P., Garnett J., Gribble S., Griffiths C., Grocock R., Gustafson E., Hammond S., Harley J.L., Hart E., Heath P.D., Ho T.P., Hopkins B., Horne J., Howden P.J., Huckle E., Hynds C., Johnson C., Johnson D., Kana A., Kay M., Kimberley A.M., Kershaw J.K., Kokkinaki M., Laird G.K., Lawlor S., Lee H.M., Leongamornlert D.A., Laird G., Lloyd C., Lloyd D.M., Loveland J., Lovell J., McLaren S., McLay K.E., McMurray A., Mashreghi-Mohammadi M., Matthews L., Milne S., Nickerson T., Nguyen M., Overton-Larty E., Palmer S.A., Pearce A.V., Peck A.I., Pelan S., Phillimore B., Porter K., Rice C.M., Rogosin A., Ross M.T., Sarafidou T., Sehra H.K., Shownkeen R., Skuce C.D., Smith M., Standring L., Sycamore N., Tester J., Thorpe A., Torcasso W., Tracey A., Tromans A., Tsolas J., Wall M., Walsh J., Wang H., Weinstock K., West A.P., Willey D.L., Whitehead S.L., Wilming L., Wray P.W., Young L., Chen Y., Lovering R.C., Moschonas N.K., Siebert R., Fechtel K., Bentley D., Durbin R.M., Hubbard T., Doucette-Stamm L., Beck S., Smith D.R., Rogers J.
Nature 429:375-381(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[7]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM A), VARIANT TYR-101.
Tissue: Uterus.
[8]"Five novel alternatively spliced transcripts of DNA (cytosine-5) methyltransferase 2 in human peripheral blood leukocytes."
Franchina M., Hooper J., Kay P.H.
Int. J. Biochem. Cell Biol. 33:1104-1115(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 19-179 (ISOFORMS A; B; C; D; E AND F).
Tissue: Peripheral blood leukocyte.
[9]"Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2."
Goll M.G., Kirpekar F., Maggert K.A., Yoder J.A., Hsieh C.L., Zhang X., Golic K.G., Jacobsen S.E., Bestor T.H.
Science 311:395-398(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, CATALYTIC ACTIVITY.
[10]"Structure of human DNMT2, an enigmatic DNA methyltransferase homolog that displays denaturant-resistant binding to DNA."
Dong A., Yoder J.A., Zhang X., Zhou L., Bestor T.H., Cheng X.
Nucleic Acids Res. 29:439-448(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS).
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF012128 mRNA. Translation: AAC51939.1.
AJ223333 mRNA. Translation: CAA11272.1.
AF045888 mRNA. Translation: AAC39764.1.
EF444974 Genomic DNA. Translation: ACA05980.1.
EF444974 Genomic DNA. Translation: ACA05984.1.
EF444974 Genomic DNA. Translation: ACA05985.1.
EF444974 Genomic DNA. Translation: ACA05986.1.
AL133415, AC067747 Genomic DNA. Translation: CAB87964.1.
CH471072 Genomic DNA. Translation: EAW86218.1.
CH471072 Genomic DNA. Translation: EAW86219.1.
BC047733 mRNA. Translation: AAH47733.1.
AF329940 mRNA. Translation: AAK68034.1.
AF329941 mRNA. Translation: AAK68035.1.
AF329942 mRNA. Translation: AAK68036.1.
AF329943 mRNA. Translation: AAK68037.1.
AF329944 mRNA. Translation: AAK68033.1.
CCDSCCDS7114.1. [O14717-1]
RefSeqNP_004403.1. NM_004412.5. [O14717-1]
XP_005252432.1. XM_005252375.2. [O14717-3]
UniGeneHs.351665.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1G55X-ray1.80A2-391[»]
ProteinModelPortalO14717.
SMRO14717. Positions 2-189, 248-391.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid108124. 14 interactions.
IntActO14717. 13 interactions.
STRING9606.ENSP00000367030.

PTM databases

PhosphoSiteO14717.

Proteomic databases

MaxQBO14717.
PaxDbO14717.
PRIDEO14717.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000351358; ENSP00000324328; ENSG00000107614. [O14717-3]
ENST00000358282; ENSP00000351027; ENSG00000107614. [O14717-5]
ENST00000377799; ENSP00000367030; ENSG00000107614. [O14717-1]
ENST00000412821; ENSP00000409354; ENSG00000107614. [O14717-2]
ENST00000424636; ENSP00000389497; ENSG00000107614.
ENST00000495022; ENSP00000417594; ENSG00000107614. [O14717-4]
ENST00000525762; ENSP00000431476; ENSG00000107614.
GeneID1787.
KEGGhsa:1787.
UCSCuc001iop.3. human. [O14717-1]

Organism-specific databases

CTD1787.
GeneCardsGC10M017098.
HGNCHGNC:2977. TRDMT1.
HPACAB009468.
HPA036946.
MIM602478. gene.
neXtProtNX_O14717.
PharmGKBPA162406922.
GenAtlasSearch...

Phylogenomic databases

eggNOGCOG0270.
HOVERGENHBG051385.
InParanoidO14717.
KOK15336.
OMAFGVPYSR.
PhylomeDBO14717.
TreeFamTF300024.

Enzyme and pathway databases

BioCycMetaCyc:HS03011-MONOMER.

Gene expression databases

ArrayExpressO14717.
BgeeO14717.
CleanExHS_TRDMT1.
GenevestigatorO14717.

Family and domain databases

Gene3D3.40.50.150. 1 hit.
InterProIPR018117. C5_DNA_meth_AS.
IPR001525. C5_MeTfrase.
IPR025813. DNA/tRNA_C5-MeTrfase.
IPR029063. SAM-dependent_MTases-like.
[Graphical view]
PANTHERPTHR10629. PTHR10629. 1 hit.
PfamPF00145. DNA_methylase. 1 hit.
[Graphical view]
PRINTSPR00105. C5METTRFRASE.
SUPFAMSSF53335. SSF53335. 2 hits.
TIGRFAMsTIGR00675. dcm. 1 hit.
PROSITEPS00095. C5_MTASE_2. 1 hit.
PS51679. SAM_MT_C5. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSTRDMT1. human.
EvolutionaryTraceO14717.
GeneWikiTRDMT1.
GenomeRNAi1787.
NextBio7271.
PROO14717.
SOURCESearch...

Entry information

Entry nameTRDMT_HUMAN
AccessionPrimary (citable) accession number: O14717
Secondary accession number(s): B0YJ02 expand/collapse secondary AC list , B0YJ03, B0YJ07, B0YJ08, O43669, Q86WW6
Entry history
Integrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: January 1, 1998
Last modified: July 9, 2014
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 10

Human chromosome 10: entries, gene names and cross-references to MIM