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Protein

tRNA pseudouridine synthase D

Gene

truD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs.1 Publication

Catalytic activityi

tRNA uridine(13) = tRNA pseudouridine(13).2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei27SubstrateBy similarity1
Active sitei31Proton acceptorSequence analysis1
Active sitei80Nucleophile1 Publication1
Binding sitei129SubstrateCurated1
Binding sitei329SubstrateBy similarity1

GO - Molecular functioni

  • pseudouridine synthase activity Source: EcoCyc
  • RNA binding Source: InterPro

GO - Biological processi

  • pseudouridine synthesis Source: EcoCyc
  • tRNA processing Source: UniProtKB-KW

Keywordsi

Molecular functionIsomerase
Biological processtRNA processing

Enzyme and pathway databases

BioCyciEcoCyc:G7422-MONOMER
MetaCyc:G7422-MONOMER
BRENDAi5.4.99.27 2026

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA pseudouridine synthase D (EC:5.4.99.27)
Alternative name(s):
tRNA pseudouridine(13) synthase
tRNA pseudouridylate synthase D
tRNA-uridine isomerase D
Gene namesi
Name:truD
Synonyms:ygbO
Ordered Locus Names:b2745, JW2715
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13109 truD

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi31E → D: 3-fold decrease in activity. 1 Publication1
Mutagenesisi31E → Q: Loss of activity. 1 Publication1
Mutagenesisi79K → L: 20-fold decrease in activity. 1 Publication1
Mutagenesisi79K → R: 10-fold decrease in activity. 1 Publication1
Mutagenesisi80D → N or T: Loss of activity. 1 Publication1
Mutagenesisi87Q → E: 3-fold decrease in activity. 1 Publication1
Mutagenesisi129N → K: Loss of activity. 1 Publication1
Mutagenesisi131F → Y: 1.5-fold decrease in activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001524951 – 349tRNA pseudouridine synthase DAdd BLAST349

Proteomic databases

PaxDbiQ57261
PRIDEiQ57261

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

BioGridi4262278, 41 interactors
IntActiQ57261, 9 interactors
STRINGi316385.ECDH10B_2913

Structurei

Secondary structure

1349
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi4 – 6Combined sources3
Beta strandi15 – 17Combined sources3
Beta strandi19 – 23Combined sources5
Helixi24 – 26Combined sources3
Beta strandi27 – 32Combined sources6
Beta strandi41 – 53Combined sources13
Helixi55 – 65Combined sources11
Helixi70 – 72Combined sources3
Beta strandi73 – 76Combined sources4
Beta strandi83 – 92Combined sources10
Helixi101 – 103Combined sources3
Beta strandi109 – 119Combined sources11
Beta strandi128 – 137Combined sources10
Helixi141 – 154Combined sources14
Helixi162 – 165Combined sources4
Helixi167 – 169Combined sources3
Helixi170 – 179Combined sources10
Helixi189 – 210Combined sources22
Beta strandi213 – 215Combined sources3
Beta strandi224 – 227Combined sources4
Beta strandi233 – 235Combined sources3
Helixi238 – 240Combined sources3
Helixi241 – 249Combined sources9
Beta strandi252 – 259Combined sources8
Helixi269 – 278Combined sources10
Turni279 – 281Combined sources3
Helixi283 – 291Combined sources9
Beta strandi297 – 303Combined sources7
Beta strandi306 – 314Combined sources9
Beta strandi317 – 325Combined sources9
Helixi330 – 334Combined sources5
Turni335 – 337Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1SB7X-ray2.20A/B1-349[»]
1SI7X-ray2.20A1-349[»]
1SZWX-ray2.00A/B1-349[»]
ProteinModelPortaliQ57261
SMRiQ57261
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ57261

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini155 – 303TRUDAdd BLAST149

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni180 – 187RNA bindingCurated8

Sequence similaritiesi

Belongs to the pseudouridine synthase TruD family.Curated

Phylogenomic databases

eggNOGiENOG4106NZV Bacteria
COG0585 LUCA
HOGENOMiHOG000224848
InParanoidiQ57261
KOiK06176
OMAiGNRFFMR
PhylomeDBiQ57261

Family and domain databases

HAMAPiMF_01082 TruD, 1 hit
InterProiView protein in InterPro
IPR020103 PsdUridine_synth_cat_dom_sf
IPR001656 PsdUridine_synth_TruD
IPR020119 PsdUridine_synth_TruD_CS
IPR011760 PsdUridine_synth_TruD_insert
PANTHERiPTHR13326 PTHR13326, 3 hits
PfamiView protein in Pfam
PF01142 TruD, 2 hits
SUPFAMiSSF55120 SSF55120, 1 hit
TIGRFAMsiTIGR00094 tRNA_TruD_broad, 1 hit
PROSITEiView protein in PROSITE
PS50984 TRUD, 1 hit
PS01268 UPF0024, 1 hit

Sequencei

Sequence statusi: Complete.

Q57261-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIEFDNLTYL HGKPQGTGLL KANPEDFVVV EDLGFEPDGE GEHILVRILK
60 70 80 90 100
NGCNTRFVAD ALAKFLKIHA REVSFAGQKD KHAVTEQWLC ARVPGKEMPD
110 120 130 140 150
LSAFQLEGCQ VLEYARHKRK LRLGALKGNA FTLVLREVSN RDDVEQRLID
160 170 180 190 200
ICVKGVPNYF GAQRFGIGGS NLQGAQRWAQ TNTPVRDRNK RSFWLSAARS
210 220 230 240 250
ALFNQIVAER LKKADVNQVV DGDALQLAGR GSWFVATTEE LAELQRRVND
260 270 280 290 300
KELMITAALP GSGEWGTQRE ALAFEQAAVA AETELQALLV REKVEAARRA
310 320 330 340
MLLYPQQLSW NWWDDVTVEI RFWLPAGSFA TSVVRELINT TGDYAHIAE
Length:349
Mass (Da):39,091
Last modified:November 1, 1996 - v1
Checksum:i45282BA3F2CCD64B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07942 Genomic DNA Translation: AAA79838.1
U29579 Genomic DNA Translation: AAA69255.1
U00096 Genomic DNA Translation: AAC75787.1
AP009048 Genomic DNA Translation: BAE76822.1
PIRiI69731
RefSeqiNP_417225.1, NC_000913.3
WP_000568943.1, NZ_LN832404.1

Genome annotation databases

EnsemblBacteriaiAAC75787; AAC75787; b2745
BAE76822; BAE76822; BAE76822
GeneIDi947214
KEGGiecj:JW2715
eco:b2745
PATRICifig|1411691.4.peg.3995

Similar proteinsi

Entry informationi

Entry nameiTRUD_ECOLI
AccessioniPrimary (citable) accession number: Q57261
Secondary accession number(s): Q2MA84
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: March 28, 2018
This is version 139 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  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
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