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Protein

tRNA (pseudouridine(54)-N(1))-methyltransferase

Gene

trmY

Organism
Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Specifically catalyzes the N1-methylation of pseudouridine at position 54 (Psi54) in tRNAs.UniRule annotation2 Publications

Catalytic activityi

S-adenosyl-L-methionine + pseudouridine(54) in tRNA = S-adenosyl-L-homocysteine + N(1)-methylpseudouridine(54) in tRNA.UniRule annotation2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei136S-adenosyl-L-methionine; via carbonyl oxygenUniRule annotation1 Publication1
Binding sitei156S-adenosyl-L-methionine; via amide nitrogenUniRule annotation1 Publication1
Binding sitei189S-adenosyl-L-methionineUniRule annotation1 Publication1

GO - Molecular functioni

  • S-adenosylmethionine-dependent methyltransferase activity Source: UniProtKB
  • tRNA methyltransferase activity Source: UniProtKB

GO - Biological processi

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

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

BRENDAi2.1.1.257. 3260.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA (pseudouridine(54)-N(1))-methyltransferaseUniRule annotation (EC:2.1.1.257UniRule annotation)
Gene namesi
Name:trmYUniRule annotation
Ordered Locus Names:MJ1640
OrganismiMethanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Taxonomic identifieri243232 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanococciMethanococcalesMethanocaldococcaceaeMethanocaldococcus
Proteomesi
  • UP000000805 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001579481 – 205tRNA (pseudouridine(54)-N(1))-methyltransferaseAdd BLAST205

Interactioni

Subunit structurei

Homodimer.UniRule annotation1 Publication

Protein-protein interaction databases

STRINGi243232.MJ_1640.

Structurei

Secondary structure

1205
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 10Combined sources9
Helixi19 – 21Combined sources3
Turni22 – 27Combined sources6
Helixi29 – 40Combined sources12
Beta strandi43 – 46Combined sources4
Beta strandi50 – 56Combined sources7
Beta strandi59 – 61Combined sources3
Beta strandi64 – 69Combined sources6
Turni70 – 72Combined sources3
Helixi80 – 96Combined sources17
Helixi101 – 103Combined sources3
Beta strandi106 – 109Combined sources4
Beta strandi112 – 115Combined sources4
Helixi119 – 128Combined sources10
Beta strandi132 – 136Combined sources5
Beta strandi140 – 142Combined sources3
Helixi143 – 145Combined sources3
Beta strandi150 – 156Combined sources7
Helixi163 – 171Combined sources9
Beta strandi175 – 178Combined sources4
Helixi186 – 199Combined sources14

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3AI9X-ray1.55X1-205[»]
3AIAX-ray1.40A/B1-205[»]
ProteinModelPortaliQ59034.
SMRiQ59034.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ59034.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni179 – 184S-adenosyl-L-methionine binding6

Sequence similaritiesi

Belongs to the methyltransferase superfamily. TrmY family.UniRule annotation

Phylogenomic databases

eggNOGiarCOG01239. Archaea.
COG1901. LUCA.
InParanoidiQ59034.
KOiK16317.
OMAiHADHCII.
PhylomeDBiQ59034.

Family and domain databases

Gene3Di3.40.1280.10. 1 hit.
HAMAPiMF_00587. tRNA_methyltr_TrmY. 1 hit.
InterProiIPR029028. Alpha/beta_knot_MTases.
IPR007158. TrmY.
IPR029026. tRNA_m1G_MTases_N.
[Graphical view]
PfamiPF04013. Methyltrn_RNA_2. 1 hit.
[Graphical view]
SUPFAMiSSF75217. SSF75217. 1 hit.

Sequencei

Sequence statusi: Complete.

Q59034-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MREFIFKANK TITSSDINLK DLPGSCGRLD LLCRCVSDAF FLSHDIRRDV
60 70 80 90 100
VFYAVLYGQP NPPVCIKFVG SELKKVSPDE RNIAIFIKKA LKKFEELDEE
110 120 130 140 150
QRKDWNQSTP GIYVRRLGFR NLVLEKLEEG KNIYYLHMNG EDVENVDIEN
160 170 180 190 200
PVFIIGDHIG IGEEDERFLD EIKAKRISLS PLELHANHCI TIIHNVLDKK

RICEI
Length:205
Mass (Da):23,704
Last modified:November 1, 1996 - v1
Checksum:iEBED16985B07E132
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L77117 Genomic DNA. Translation: AAB99660.1.
PIRiF64504.
RefSeqiWP_010871164.1. NC_000909.1.

Genome annotation databases

EnsemblBacteriaiAAB99660; AAB99660; MJ_1640.
GeneIDi1452549.
KEGGimja:MJ_1640.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L77117 Genomic DNA. Translation: AAB99660.1.
PIRiF64504.
RefSeqiWP_010871164.1. NC_000909.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3AI9X-ray1.55X1-205[»]
3AIAX-ray1.40A/B1-205[»]
ProteinModelPortaliQ59034.
SMRiQ59034.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243232.MJ_1640.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB99660; AAB99660; MJ_1640.
GeneIDi1452549.
KEGGimja:MJ_1640.

Phylogenomic databases

eggNOGiarCOG01239. Archaea.
COG1901. LUCA.
InParanoidiQ59034.
KOiK16317.
OMAiHADHCII.
PhylomeDBiQ59034.

Enzyme and pathway databases

BRENDAi2.1.1.257. 3260.

Miscellaneous databases

EvolutionaryTraceiQ59034.

Family and domain databases

Gene3Di3.40.1280.10. 1 hit.
HAMAPiMF_00587. tRNA_methyltr_TrmY. 1 hit.
InterProiIPR029028. Alpha/beta_knot_MTases.
IPR007158. TrmY.
IPR029026. tRNA_m1G_MTases_N.
[Graphical view]
PfamiPF04013. Methyltrn_RNA_2. 1 hit.
[Graphical view]
SUPFAMiSSF75217. SSF75217. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiTRMY_METJA
AccessioniPrimary (citable) accession number: Q59034
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 25, 2002
Last sequence update: November 1, 1996
Last modified: November 2, 2016
This is version 87 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Methanococcus jannaschii
    Methanococcus jannaschii: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

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.