Protein profile

KP13_01098

tRNA pseudouridine synthase B

Genome: KpKP13

Gene: truB AHE42510.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GTP1
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Amino acids 304
Annotations 9
Features 24
PDB binders 0
Druggability 0.398

Overview

Basic information about this protein and its source genome.

Accession
KP13_01098
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
truB AHE42510.1
Status
annotated
Amino acids
304
Structure source
AlphaFold + ColabFold
EC
5.4.99.25
GO
GO:0009451 The covalent alteration of one or more nucleotides within an RNA molecule to produce an RNA molecule with a sequence that differs from that coded genetically. GO:0009982 Catalysis of the reaction: a uridine in RNA = a pseudouridine in RNA. 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. GO:0001522 The intramolecular conversion of uridine to pseudouridine within an RNA molecule. GO:0006396 Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules. GO:0003723 Binding to an RNA molecule or a portion thereof. GO:0160148 Catalysis of the reaction: uridine(55) in tRNA = pseudouridine(55) in tRNA.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
41.509
Human E-value
3.73e-08
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
58.657
DEG E-value
2.0699999999999999e-112
Localization
Cytoplasmic
ColabFold pLDDT
95.84

Selected Druggability evidence

AlphaFold / UniProt model

Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.

FPocket 0.398
Structure A0A0H3GTP1
Pocket Pocket 4
P2Rank 0.361
Structure A0A0H3GTP1
Pocket Pocket 1
ColabFold model
FPocket 0.614 · Pocket 2
P2Rank 0.406 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 150 / 4744 genomes with a hit
Normalized 0.032

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0009451 The covalent alteration of one or more nucleotides within an RNA molecule to produce an RNA molecule with a sequence that differs from that coded genetically.
  • GO:0009982 Catalysis of the reaction: a uridine in RNA = a pseudouridine in RNA. 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.
  • GO:0001522 The intramolecular conversion of uridine to pseudouridine within an RNA molecule.
  • GO:0006396 Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
  • GO:0003723 Binding to an RNA molecule or a portion thereof.
  • GO:0160148 Catalysis of the reaction: uridine(55) in tRNA = pseudouridine(55) in tRNA.
  • GO:1990481 The intramolecular conversion of uridine to pseudouridine in an mRNA molecule.
  • GO:0031119 The intramolecular conversion of uridine to pseudouridine in a tRNA molecule.

Sequence Features

Domain/signature hits from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
242 299 Pfam PF09157 Pseudouridine synthase II TruB, C-terminal
242 299 InterPro IPR015240 tRNA pseudouridine synthase II, TruB, subfamily 1, C-terminal
1 239 Gene3D G3DSA:3.30.2350.10 Pseudouridine synthase
239 299 CDD cd21152 PUA_TruB_bacterial
1 239 FunFam G3DSA:3.30.2350.10:FF:000003 tRNA pseudouridine synthase B
240 304 Gene3D G3DSA:2.30.130.10 PUA domain
240 304 InterPro IPR036974 PUA domain superfamily
1 209 NCBIfam TIGR00431 tRNA pseudouridine(55) synthase TruB
1 209 InterPro IPR014780 tRNA pseudouridine synthase II, TruB
1 236 SUPERFAMILY SSF55120 Pseudouridine synthase
1 236 InterPro IPR020103 Pseudouridine synthase, catalytic domain superfamily
1 216 PANTHER PTHR13767 TRNA-PSEUDOURIDINE SYNTHASE
1 216 InterPro IPR014780 tRNA pseudouridine synthase II, TruB
1 299 Hamap MF_01080 tRNA pseudouridine synthase B [truB].
1 299 InterPro IPR014780 tRNA pseudouridine synthase II, TruB
240 304 FunFam G3DSA:2.30.130.10:FF:000004 tRNA pseudouridine synthase B
3 212 CDD cd02573 PseudoU_synth_EcTruB
3 212 InterPro IPR014780 tRNA pseudouridine synthase II, TruB
23 170 Pfam PF01509 TruB family pseudouridylate synthase (N terminal domain)
23 170 InterPro IPR002501 Pseudouridine synthase II, N-terminal
171 237 Pfam PF16198 tRNA pseudouridylate synthase B C-terminal domain
171 237 InterPro IPR032819 tRNA pseudouridylate synthase B, C-terminal
241 300 SUPERFAMILY SSF88697 PUA domain-like
241 300 InterPro IPR015947 PUA-like superfamily

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

3D visualization script Full viewer

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Structural evidence

0 + 2

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold AF_A0A0H3GTP1
AlphaFold — — full sequence — Viewing
ColabFold KP13_01098
ColabFold — — full sequence — Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

Pockets (FPOCKET)

Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).

FPOCKET Sticks Spheres Surfaces Druggability Labels Zoom Positions
4 0.398

Pockets (P2RANK)

Showing top-ranked P2Rank candidates by probability. Probability is color-coded per P2Rank calibration: high (≥ 0.5), medium (0.2 – 0.49), low (< 0.2).

P2RANK Sticks Spheres Surfaces Score Probability Labels Zoom Positions
1 3.21 0.11