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Protein

Probable tRNA pseudouridine synthase D

Gene

truD

Organism
Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) (Methanosarcina frisia)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Could be responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs.UniRule annotation

Catalytic activityi

tRNA uridine(13) = tRNA pseudouridine(13).UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei86 – 861NucleophileUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BioCyciMMAZ192952:GCK2-114-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable tRNA pseudouridine synthase DUniRule annotation (EC:5.4.99.27UniRule annotation)
Alternative name(s):
tRNA pseudouridine(13) synthaseUniRule annotation
tRNA pseudouridylate synthase DUniRule annotation
tRNA-uridine isomerase DUniRule annotation
Gene namesi
Name:truDUniRule annotation
Ordered Locus Names:MM_0114
OrganismiMethanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) (Methanosarcina frisia)
Taxonomic identifieri192952 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanomicrobiaMethanosarcinalesMethanosarcinaceaeMethanosarcina
Proteomesi
  • UP000000595 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 438438Probable tRNA pseudouridine synthase DPRO_0000152543Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi192952.MM_0114.

Structurei

Secondary structure

1
438
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi5 – 84Combined sources
Turni9 – 113Combined sources
Helixi30 – 323Combined sources
Beta strandi33 – 397Combined sources
Beta strandi47 – 5812Combined sources
Helixi61 – 7212Combined sources
Helixi76 – 783Combined sources
Beta strandi79 – 835Combined sources
Beta strandi87 – 9812Combined sources
Helixi102 – 1054Combined sources
Beta strandi113 – 12311Combined sources
Beta strandi130 – 14415Combined sources
Helixi146 – 16318Combined sources
Beta strandi165 – 1673Combined sources
Turni172 – 1754Combined sources
Beta strandi177 – 1793Combined sources
Helixi182 – 19110Combined sources
Helixi194 – 2029Combined sources
Helixi213 – 22311Combined sources
Helixi226 – 2327Combined sources
Helixi238 – 24912Combined sources
Helixi254 – 2585Combined sources
Helixi263 – 28725Combined sources
Beta strandi292 – 2943Combined sources
Beta strandi306 – 3083Combined sources
Beta strandi312 – 3143Combined sources
Turni320 – 3223Combined sources
Helixi323 – 3308Combined sources
Turni331 – 3333Combined sources
Beta strandi336 – 3383Combined sources
Beta strandi343 – 3453Combined sources
Helixi352 – 36312Combined sources
Helixi368 – 3703Combined sources
Helixi377 – 3793Combined sources
Beta strandi387 – 3915Combined sources
Beta strandi398 – 4003Combined sources
Beta strandi408 – 4136Combined sources
Beta strandi415 – 4173Combined sources
Helixi423 – 4308Combined sources
Turni434 – 4363Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1Z2ZX-ray2.60A/B1-438[»]
ProteinModelPortaliQ8Q0M2.
SMRiQ8Q0M2. Positions 1-437.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8Q0M2.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini165 – 390226TRUDUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the pseudouridine synthase TruD family.UniRule annotation
Contains 1 TRUD domain.UniRule annotation

Phylogenomic databases

eggNOGiarCOG04252. Archaea.
COG0585. LUCA.
HOGENOMiHOG000224849.
KOiK06176.
OMAiLRYERAM.

Family and domain databases

HAMAPiMF_01082. TruD. 1 hit.
InterProiIPR020103. PsdUridine_synth_cat_dom.
IPR001656. PsdUridine_synth_TruD.
IPR020119. PsdUridine_synth_TruD_CS.
IPR011760. PsdUridine_synth_TruD_insert.
[Graphical view]
PANTHERiPTHR13326. PTHR13326. 1 hit.
PfamiPF01142. TruD. 1 hit.
[Graphical view]
SUPFAMiSSF55120. SSF55120. 2 hits.
TIGRFAMsiTIGR00094. tRNA_TruD_broad. 1 hit.
PROSITEiPS50984. TRUD. 1 hit.
PS01268. UPF0024. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8Q0M2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEVPEIEKQI GINLYSTDTT GLGGQLRQEI EDFIVKEITN REEGEEGKYL
60 70 80 90 100
IVELTKRDWD THHLTRTLSR ILQVSQKRIS VAGTKDKRAL TTQKISIFDT
110 120 130 140 150
DASEIEKIHL KDIELKVLGR SRKSVELGDL WGNDFRITVR NIENSPEETE
160 170 180 190 200
ALLKKTTDEI LAQGGVPNFF GIQRFGSVRP VTHLVGKAIV EGNFEKAALL
210 220 230 240 250
YIAEPFPEEP EETKNARQFV KDTLDFKEGL KTYPLRLGHE RAMMNHLIAN
260 270 280 290 300
PEDYSGSFRV LPQNLYRMFV HGYQSYIYNI ILCRRIEAGI PLNRAVEGDI
310 320 330 340 350
VCFRNEVGLP DSSKTEKVTS ETVNAMNRLL KLGRAFITAP LPGYNTEFAS
360 370 380 390 400
GIPGEIENGV LKELGVSLEG FNIEKFPEMS SKGTRREVLL EVKPKFEAGE
410 420 430
DELNPGKSKA VLEFMLPKGS YATTVLREYM KVNPLQMS
Length:438
Mass (Da):49,499
Last modified:October 1, 2002 - v1
Checksum:iD8404CC1672C0016
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE008384 Genomic DNA. Translation: AAM29810.1.
RefSeqiWP_011032068.1. NC_003901.1.

Genome annotation databases

EnsemblBacteriaiAAM29810; AAM29810; MM_0114.
GeneIDi24838872.
KEGGimma:MM_0114.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE008384 Genomic DNA. Translation: AAM29810.1.
RefSeqiWP_011032068.1. NC_003901.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1Z2ZX-ray2.60A/B1-438[»]
ProteinModelPortaliQ8Q0M2.
SMRiQ8Q0M2. Positions 1-437.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi192952.MM_0114.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM29810; AAM29810; MM_0114.
GeneIDi24838872.
KEGGimma:MM_0114.

Phylogenomic databases

eggNOGiarCOG04252. Archaea.
COG0585. LUCA.
HOGENOMiHOG000224849.
KOiK06176.
OMAiLRYERAM.

Enzyme and pathway databases

BioCyciMMAZ192952:GCK2-114-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ8Q0M2.

Family and domain databases

HAMAPiMF_01082. TruD. 1 hit.
InterProiIPR020103. PsdUridine_synth_cat_dom.
IPR001656. PsdUridine_synth_TruD.
IPR020119. PsdUridine_synth_TruD_CS.
IPR011760. PsdUridine_synth_TruD_insert.
[Graphical view]
PANTHERiPTHR13326. PTHR13326. 1 hit.
PfamiPF01142. TruD. 1 hit.
[Graphical view]
SUPFAMiSSF55120. SSF55120. 2 hits.
TIGRFAMsiTIGR00094. tRNA_TruD_broad. 1 hit.
PROSITEiPS50984. TRUD. 1 hit.
PS01268. UPF0024. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTRUD_METMA
AccessioniPrimary (citable) accession number: Q8Q0M2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 26, 2003
Last sequence update: October 1, 2002
Last modified: November 11, 2015
This is version 83 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

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.