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Protein

tRNA:m(4)X modification enzyme TRM13 homolog

Gene

TRMT13

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -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

  • metal ion binding Source: UniProtKB-KW
  • tRNA 2'-O-methyltransferase activity Source: InterPro
  • tRNA methyltransferase activity Source: GO_Central

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

EuPathDBiHostDB:ENSG00000122435.9
HGNCiHGNC:25502 TRMT13
neXtProtiNX_Q9NUP7

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
ProteomicsDBi82703
82704 [Q9NUP7-2]

PTM databases

iPTMnetiQ9NUP7
PhosphoSitePlusiQ9NUP7

Expressioni

Gene expression databases

BgeeiENSG00000122435 Expressed in 211 organ(s), highest expression level in corpus callosum
CleanExiHS_CCDC76
ExpressionAtlasiQ9NUP7 baseline and differential
GenevisibleiQ9NUP7 HS

Organism-specific databases

HPAiHPA028494

Interactioni

Protein-protein interaction databases

BioGridi119985, 6 interactors
IntActiQ9NUP7, 1 interactor
STRINGi9606.ENSP00000359160

Structurei

3D structure databases

ProteinModelPortaliQ9NUP7
SMRiQ9NUP7
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
IPR039044 Trm13
IPR022776 TRM13/UPF0224_CHHC_Znf_dom
IPR021721 Znf_CCCH-type_TRM13
PANTHERiPTHR12998 PTHR12998, 1 hit
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

This entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

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

Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
Q5VVK9Q5VVK9_HUMAN
tRNA:m(4)X modification enzyme TRM1...
TRMT13
130Annotation score:
Q5VVL2Q5VVL2_HUMAN
tRNA:m(4)X modification enzyme TRM1...
TRMT13
109Annotation score:

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

Cross-referencesi

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

3D structure databases

ProteinModelPortaliQ9NUP7
SMRiQ9NUP7
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119985, 6 interactors
IntActiQ9NUP7, 1 interactor
STRINGi9606.ENSP00000359160

PTM databases

iPTMnetiQ9NUP7
PhosphoSitePlusiQ9NUP7

Polymorphism and mutation databases

BioMutaiTRMT13
DMDMi108885172

Proteomic databases

EPDiQ9NUP7
MaxQBiQ9NUP7
PaxDbiQ9NUP7
PeptideAtlasiQ9NUP7
PRIDEiQ9NUP7
ProteomicsDBi82703
82704 [Q9NUP7-2]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CTDi54482
EuPathDBiHostDB:ENSG00000122435.9
GeneCardsiTRMT13
H-InvDBiHIX0000813
HGNCiHGNC:25502 TRMT13
HPAiHPA028494
neXtProtiNX_Q9NUP7
OpenTargetsiENSG00000122435
PharmGKBiPA143485428
GenAtlasiSearch...

Phylogenomic databases

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

Enzyme and pathway databases

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

Miscellaneous databases

ChiTaRSiTRMT13 human
GenomeRNAii54482
PROiPR:Q9NUP7

Gene expression databases

BgeeiENSG00000122435 Expressed in 211 organ(s), highest expression level in corpus callosum
CleanExiHS_CCDC76
ExpressionAtlasiQ9NUP7 baseline and differential
GenevisibleiQ9NUP7 HS

Family and domain databases

InterProiView protein in InterPro
IPR007871 Methyltransferase_TRM13
IPR039044 Trm13
IPR022776 TRM13/UPF0224_CHHC_Znf_dom
IPR021721 Znf_CCCH-type_TRM13
PANTHERiPTHR12998 PTHR12998, 1 hit
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
ProtoNetiSearch...

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: September 12, 2018
This is version 128 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. SIMILARITY comments
    Index of protein domains and families
  2. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
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