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Protein

tRNA:m(4)X modification enzyme TRM13 homolog

Gene

TRMT13

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

tRNA methylase which 2'-O-methylates cytidine4 in tRNA(Pro) and tRNA(Gly)(GCC), and adenosine4 in tRNA(His).By similarity

Catalytic activityi

S-adenosyl-L-methionine + cytidine4 in tRNA(Pro) = S-adenosyl-L-homocysteine + 2'-O-methylcytidine4 in tRNA(Pro).By similarity
S-adenosyl-L-methionine + cytidine4 in tRNA(Gly)(GCC) = S-adenosyl-L-homocysteine + 2'-O-methylcytidine4 in tRNA(Gly)(GCC).By similarity
S-adenosyl-L-methionine + adenosine4 in tRNA(His) = S-adenosyl-L-homocysteine + 2'-O-methyladenosine4 in tRNA(His).By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri56 – 83CHHC U11-48K-typePROSITE-ProRule annotationAdd BLAST28

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionMethyltransferase, Transferase
Biological processtRNA processing
LigandMetal-binding, S-adenosyl-L-methionine, Zinc

Enzyme and pathway databases

ReactomeiR-HSA-6782315. tRNA modification in the nucleus and cytosol.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA:m(4)X modification enzyme TRM13 homolog (EC:2.1.1.225)
Alternative name(s):
Coiled-coil domain-containing protein 76
Gene namesi
Name:TRMT13
Synonyms:CCDC76
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:25502. TRMT13.

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000122435.
PharmGKBiPA143485428.

Polymorphism and mutation databases

BioMutaiTRMT13.
DMDMi108885172.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00002366782 – 481tRNA:m(4)X modification enzyme TRM13 homologAdd BLAST480

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiQ9NUP7.
MaxQBiQ9NUP7.
PaxDbiQ9NUP7.
PeptideAtlasiQ9NUP7.
PRIDEiQ9NUP7.

PTM databases

iPTMnetiQ9NUP7.
PhosphoSitePlusiQ9NUP7.

Expressioni

Gene expression databases

BgeeiENSG00000122435.
CleanExiHS_CCDC76.
ExpressionAtlasiQ9NUP7. baseline and differential.
GenevisibleiQ9NUP7. HS.

Organism-specific databases

HPAiHPA028494.

Interactioni

Protein-protein interaction databases

BioGridi119985. 5 interactors.
IntActiQ9NUP7. 1 interactor.
STRINGi9606.ENSP00000359160.

Structurei

3D structure databases

ProteinModelPortaliQ9NUP7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili113 – 140Sequence analysisAdd BLAST28

Sequence similaritiesi

Belongs to the methyltransferase TRM13 family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri56 – 83CHHC U11-48K-typePROSITE-ProRule annotationAdd BLAST28

Keywords - Domaini

Coiled coil, Zinc-finger

Phylogenomic databases

eggNOGiKOG2811. Eukaryota.
ENOG410Z6H8. LUCA.
GeneTreeiENSGT00390000003182.
HOGENOMiHOG000000772.
HOVERGENiHBG054828.
InParanoidiQ9NUP7.
KOiK15446.
OMAiLIALCCH.
OrthoDBiEOG091G0B5L.
PhylomeDBiQ9NUP7.
TreeFamiTF317538.

Family and domain databases

InterProiView protein in InterPro
IPR007871. Methyltransferase_TRM13.
IPR022776. TRM13/UPF0224_CHHC_Znf_dom.
IPR021721. Znf_CCCH-type_TRM13.
PfamiView protein in Pfam
PF05206. TRM13. 1 hit.
PF11722. zf-TRM13_CCCH. 1 hit.
PF05253. zf-U11-48K. 1 hit.
PROSITEiView protein in PROSITE
PS51800. ZF_CHHC_U11_48K. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9NUP7-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MATSATSPHA PGFPAEGRCG YYVEKKKRFC RMVVAAGKRF CGEHAGAAEE
60 70 80 90 100
EDARKRILCP LDPKHTVYED QLAKHLKKCN SREKPKPDFY IQDINAGLRD
110 120 130 140 150
ETEIPEQLVP ISSLSEEQLE KLIKKLRKAS EGLNSTLKDH IMSHPALHDA
160 170 180 190 200
LNDPKNGDSA TKHLKQQASI LGNIENLKLL GPRRCFVEFG AGKGKLSHWV
210 220 230 240 250
DIALKDAEKV HFILVEKVTT RFKVDGKHRK KNSVFERLQI DIQHLCLNKI
260 270 280 290 300
PVLREEKLPV VGIGKHLCGM ATDLALRCLV ETYAASFEER NEEPLAKRIK
310 320 330 340 350
NDKTEKEIYT LAKEGNEKNV PEKWNPVAGI VIALCCHHRC DWRHYVGKEY
360 370 380 390 400
FRALGLGAVE FHYFQRMSSW ATCGMRKTSL ETSNSTTKRQ DNQNDDSEEH
410 420 430 440 450
DDGGYRITDD GADCLPGLLS VEEKKKIGHL CKLLIDQGRI QYLQQKGFSP
460 470 480
ALQYYTDPLV SLENVLLTAL PNHSSSPETT A
Length:481
Mass (Da):54,247
Last modified:May 30, 2006 - v2
Checksum:iA801BFD66D6BFB5A
GO
Isoform 2 (identifier: Q9NUP7-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     168-175: ASILGNIE → VCLGYSNY
     176-481: Missing.

Show »
Length:175
Mass (Da):19,615
Checksum:i6117629AED2DAE7C
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti48A → M in BAA92074 (PubMed:14702039).Curated1
Sequence conflicti48A → M in AAH75811 (PubMed:15489334).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_05780648A → V. Corresponds to variant dbSNP:rs687513Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_018578168 – 175ASILGNIE → VCLGYSNY in isoform 2. 1 Publication8
Alternative sequenceiVSP_018579176 – 481Missing in isoform 2. 1 PublicationAdd BLAST306

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK001149 mRNA. Translation: BAA91520.1.
AK002081 mRNA. Translation: BAA92074.1.
AL445928 Genomic DNA. No translation available.
BC075811 mRNA. Translation: AAH75811.1.
CCDSiCCDS765.1. [Q9NUP7-1]
RefSeqiNP_061956.2. NM_019083.2. [Q9NUP7-1]
UniGeneiHs.729095.

Genome annotation databases

EnsembliENST00000370141; ENSP00000359160; ENSG00000122435. [Q9NUP7-1]
ENST00000482437; ENSP00000432616; ENSG00000122435. [Q9NUP7-2]
GeneIDi54482.
KEGGihsa:54482.
UCSCiuc001dsv.4. human. [Q9NUP7-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiTRM13_HUMAN
AccessioniPrimary (citable) accession number: Q9NUP7
Secondary accession number(s): Q5VVL0, Q9NW65
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 30, 2006
Last sequence update: May 30, 2006
Last modified: August 30, 2017
This is version 120 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (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.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. SIMILARITY comments
    Index of protein domains and families