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IPR020095

Description

IPR020095 is a Pseudouridine synthase I, TruA, C-terminal.

<p>Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an α+β structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are [[cite:PUB00045922], [cite:PUB00092579]]:</p> <ul><li>Pseudouridine synthase I, TruA.</li> <li>Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain.</li> <li>Pseudouridine synthase RsuA. RluB, RluE and RluF are also part of this family.</li> <li>Pseudouridine synthase RluA. TruC, RluC and RluD belong to this family.</li> <li>Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific α+β subdomain.</li></ul> <p>This superfamily represents the Pseudouridine synthase I (TruA) C-terminal domain.</p> <p>TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [[cite:PUB00015686], [cite:PUB00042017]]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis [[cite:PUB00000455]]. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique.</p>

This description is obtained from EB-eye REST.

Associated GO terms

GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on , while the GO metadata was last updated on .

GO term Namespace Name Definition Relationships
Molecular function RNA binding Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
Molecular function Pseudouridine synthase activity Catalysis of the reaction: RNA uridine = RNA pseudouridine. Conversion of uridine in an RNA molecule to pseudouridine by rotation of the C1'-N-1 glycosidic bond of uridine in RNA to a C1'-C5.

Associated Lotus transcripts 18

Transcript Name Description Predicted domains Domain count
Pseudouridylate synthase [Medicago truncatula] gi|357491363|ref|XP_003615969.1| 10
PREDICTED: tRNA pseudouridine synthase A-like [Glycine max] gi|356543399|ref|XP_003540148.1| 10
TRNA pseudouridine synthase [Medicago truncatula] gi|357480149|ref|XP_003610360.1| 13
Pseudouridylate synthase [Medicago truncatula] gi|357491363|ref|XP_003615969.1| 19
Pseudouridylate synthase [Medicago truncatula] gi|357491367|ref|XP_003615971.1| 10
Pseudouridylate synthase [Medicago truncatula] gi|357491367|ref|XP_003615971.1| 13
PREDICTED: tRNA pseudouridine synthase A 1-like [Glycine max] gi|356564676|ref|XP_003550576.1| 15
PREDICTED: tRNA pseudouridine synthase A-like [Glycine max] gi|356527708|ref|XP_003532450.1| 9
PREDICTED: tRNA pseudouridine synthase 3-like [Glycine max] gi|356574565|ref|XP_003555416.1| 10
PREDICTED: tRNA pseudouridine synthase 3-like [Glycine max] gi|356574565|ref|XP_003555416.1| 16
PREDICTED: tRNA pseudouridine synthase 3-like [Glycine max] gi|356574565|ref|XP_003555416.1| 10
TRNA pseudouridine synthase A, related protein; TAIR: AT2G30320.1 Pseudouridine synthase family protein; Swiss-Prot: sp|O22928|PUSH_ARATH Putative tRNA pseudouridine synthase; TrEMBL-Plants: tr|K7KAB0|K7KAB0_SOYBN tRNA pseudouridine synthase; Found in the gene: LotjaGi1g1v0109500 13
TRNA pseudouridine synthase A; TAIR: AT2G30320.1 Pseudouridine synthase family protein; Swiss-Prot: sp|O22928|PUSH_ARATH Putative tRNA pseudouridine synthase; TrEMBL-Plants: tr|K7KAA8|K7KAA8_SOYBN Uncharacterized protein; Found in the gene: LotjaGi1g1v0110600 19
TRNA pseudouridine synthase A, related protein; TAIR: AT1G20370.1 Pseudouridine synthase family protein; Swiss-Prot: sp|Q6CC39|PUS1_YARLI tRNA pseudouridine synthase 1; TrEMBL-Plants: tr|G7JGU0|G7JGU0_MEDTR tRNA pseudouridine synthase A, related protein; Found in the gene: LotjaGi4g1v0286200 13
TRNA pseudouridine synthase A, related protein; TAIR: AT1G20370.1 Pseudouridine synthase family protein; Swiss-Prot: sp|Q6CC39|PUS1_YARLI tRNA pseudouridine synthase 1; TrEMBL-Plants: tr|G7JGU0|G7JGU0_MEDTR tRNA pseudouridine synthase A, related protein; Found in the gene: LotjaGi4g1v0286200 13
TRNA pseudouridine synthase A; TAIR: AT3G06950.1 Pseudouridine synthase family protein; Swiss-Prot: sp|Q6MEE7|TRUA1_PARUW tRNA pseudouridine synthase A 1; TrEMBL-Plants: tr|V7CC41|V7CC41_PHAVU tRNA pseudouridine synthase; Found in the gene: LotjaGi4g1v0314200 19
TRNA pseudouridine synthase A; TAIR: AT5G35400.1 Pseudouridine synthase family protein; Swiss-Prot: sp|B0SC03|TRUA_LEPBA tRNA pseudouridine synthase A; TrEMBL-Plants: tr|I1KPQ1|I1KPQ1_SOYBN tRNA pseudouridine synthase; Found in the gene: LotjaGi4g1v0439300 10
TRNA pseudouridine synthase; TAIR: AT1G34150.1 Pseudouridine synthase family protein; Swiss-Prot: sp|Q3SX07|PUS3_BOVIN tRNA pseudouridine(38/39) synthase; TrEMBL-Plants: tr|K7N408|K7N408_SOYBN tRNA pseudouridine synthase; Found in the gene: LotjaGi5g1v0285000 16

Co-occuring domains 1

A list of co-occurring predicted domains within the L. japonicus gene space:

Predicted domain Source Observations Saturation (%)
mobidb-lite MobiDBLite 1 5.56