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Protein

tRNA:m(4)X modification enzyme TRM13

Gene

TRM13

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
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).1 Publication

Catalytic activityi

S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing 2'-O-methyluridine.1 Publication
S-adenosyl-L-methionine + cytidine4 in tRNA(Pro) = S-adenosyl-L-homocysteine + 2'-O-methylcytidine4 in tRNA(Pro).1 Publication
S-adenosyl-L-methionine + cytidine4 in tRNA(Gly)(GCC) = S-adenosyl-L-homocysteine + 2'-O-methylcytidine4 in tRNA(Gly)(GCC).1 Publication
S-adenosyl-L-methionine + adenosine4 in tRNA(His) = S-adenosyl-L-homocysteine + 2'-O-methyladenosine4 in tRNA(His).1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri72 – 99CHHC U11-48K-typePROSITE-ProRule annotationAdd BLAST28

GO - Molecular functioni

GO - Biological processi

  • tRNA methylation Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

Metal-binding, S-adenosyl-L-methionine, Zinc

Enzyme and pathway databases

BioCyciMetaCyc:G3O-33521-MONOMER.
YEAST:G3O-33521-MONOMER.
BRENDAi2.1.1.225. 984.
ReactomeiR-SCE-6782315. tRNA modification in the nucleus and cytosol.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA:m(4)X modification enzyme TRM13 (EC:2.1.1.225)
Alternative name(s):
tRNA methylase 13
Gene namesi
Name:TRM13
Ordered Locus Names:YOL125W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XV

Organism-specific databases

EuPathDBiFungiDB:YOL125W.
SGDiS000005485. TRM13.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002359321 – 476tRNA:m(4)X modification enzyme TRM13Add BLAST476

Proteomic databases

MaxQBiQ12383.
PRIDEiQ12383.

PTM databases

iPTMnetiQ12383.

Interactioni

Protein-protein interaction databases

BioGridi34250. 13 interactors.
IntActiQ12383. 2 interactors.
MINTiMINT-627751.

Structurei

3D structure databases

ProteinModelPortaliQ12383.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Contains 1 CHHC U11-48K-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri72 – 99CHHC U11-48K-typePROSITE-ProRule annotationAdd BLAST28

Keywords - Domaini

Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00390000003182.
HOGENOMiHOG000000772.
InParanoidiQ12383.
KOiK15446.
OMAiLIALCCH.
OrthoDBiEOG092C2SYB.

Family and domain databases

InterProiIPR007871. Methyltransferase_TRM13.
IPR022776. TRM13/UPF0224_CHHC_Znf_dom.
IPR021721. Znf_CCCH-type_TRM13.
[Graphical view]
PfamiPF05206. TRM13. 1 hit.
PF11722. zf-TRM13_CCCH. 1 hit.
PF05253. zf-U11-48K. 1 hit.
[Graphical view]
PROSITEiPS51800. ZF_CHHC_U11_48K. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q12383-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLQDNNGPAV KRAKPSERLQ CEYFMEKKKR RCGMTRSSQN LYCSEHLNLM
60 70 80 90 100
KKAANSQVHN KNGSEAEKER ERVPCPLDPN HTVWADQLKK HLKKCNKTKL
110 120 130 140 150
SHLNDDKPYY EPGYNGENGL LSSSVKIDIT AEHLVQSIEL LYKVFEGESM
160 170 180 190 200
DELPLRQLNN KLMSLKRFPQ LPSNTKHAVQ QSSLIENLVD AGAFERPESL
210 220 230 240 250
NFIEFGCGRA EFSRYVSLYL LTQLTSLPAE HSGSNSNEFV LIDRATNRMK
260 270 280 290 300
FDKKIKDDFS EIKSNSPSKP ISCPSIKRIK IDIRDLKMDP ILKSTPGDDI
310 320 330 340 350
QYVCISKHLC GVATDLTLRC IGNSSILHGD DNNGCNPKLK AICIAMCCRH
360 370 380 390 400
VCDYGDYVNR SYVTSLVEKY RAHGSILTYE TFFRVLTKLC SWGTCGRKPG
410 420 430 440 450
TAITDIVNVV ESFEGAEPYT ITIKERENIG LMARRVIDEG RLVYVKEKFT
460 470
EFNAELIRYV ESDVSLENVA MLVYKK
Length:476
Mass (Da):54,095
Last modified:November 1, 1996 - v1
Checksum:i3280A732FFA374C1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U41293 Genomic DNA. Translation: AAC49467.1.
Z74867 Genomic DNA. Translation: CAA99144.1.
BK006948 Genomic DNA. Translation: DAA10659.1.
PIRiS63445.
RefSeqiNP_014516.1. NM_001183379.2.

Genome annotation databases

EnsemblFungiiYOL125W; YOL125W; YOL125W.
GeneIDi853995.
KEGGisce:YOL125W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U41293 Genomic DNA. Translation: AAC49467.1.
Z74867 Genomic DNA. Translation: CAA99144.1.
BK006948 Genomic DNA. Translation: DAA10659.1.
PIRiS63445.
RefSeqiNP_014516.1. NM_001183379.2.

3D structure databases

ProteinModelPortaliQ12383.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi34250. 13 interactors.
IntActiQ12383. 2 interactors.
MINTiMINT-627751.

PTM databases

iPTMnetiQ12383.

Proteomic databases

MaxQBiQ12383.
PRIDEiQ12383.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYOL125W; YOL125W; YOL125W.
GeneIDi853995.
KEGGisce:YOL125W.

Organism-specific databases

EuPathDBiFungiDB:YOL125W.
SGDiS000005485. TRM13.

Phylogenomic databases

GeneTreeiENSGT00390000003182.
HOGENOMiHOG000000772.
InParanoidiQ12383.
KOiK15446.
OMAiLIALCCH.
OrthoDBiEOG092C2SYB.

Enzyme and pathway databases

BioCyciMetaCyc:G3O-33521-MONOMER.
YEAST:G3O-33521-MONOMER.
BRENDAi2.1.1.225. 984.
ReactomeiR-SCE-6782315. tRNA modification in the nucleus and cytosol.

Miscellaneous databases

PROiQ12383.

Family and domain databases

InterProiIPR007871. Methyltransferase_TRM13.
IPR022776. TRM13/UPF0224_CHHC_Znf_dom.
IPR021721. Znf_CCCH-type_TRM13.
[Graphical view]
PfamiPF05206. TRM13. 1 hit.
PF11722. zf-TRM13_CCCH. 1 hit.
PF05253. zf-U11-48K. 1 hit.
[Graphical view]
PROSITEiPS51800. ZF_CHHC_U11_48K. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTRM13_YEAST
AccessioniPrimary (citable) accession number: Q12383
Secondary accession number(s): D6W1U3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 16, 2006
Last sequence update: November 1, 1996
Last modified: November 2, 2016
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 1230 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XV
    Yeast (Saccharomyces cerevisiae) chromosome XV: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.