Protein profile

VK055_4942

tRNA dihydrouridine synthase

Genome: KpATCC43816

Gene: AIK83468.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GVF9
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Amino acids 303
Annotations 8
Features 16
PDB binders 0
Druggability 0.202

Overview

Basic information about this protein and its source genome.

Accession
VK055_4942
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK83468.1
Status
annotated
Amino acids
303
Structure source
AlphaFold + ColabFold
EC
1.3.1.-
GO
GO:0008033 The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group. GO:0017150 Catalysis of the reaction: a 5,6-dihydrouridine in tRNA + NAD(P)+ = a uridine in tRNA + H+ + NAD(P)H. GO:0050660 Binding to FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2. GO:0002943 The process whereby a uridine in a transfer RNA is converted to dihydrouridine. GO:0010181 Binding to flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes. GO:0000049 Binding to a transfer RNA.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
36.634
Human E-value
4.05e-11
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
28.085
Localization
Cytoplasmic
ColabFold pLDDT
96.06

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 0.202
Structure A0A0H3GVF9
Pocket Pocket 1
P2Rank 0.899
Structure A0A0H3GVF9
Pocket Pocket 1
ColabFold model
FPocket 0.31 · Pocket 1
P2Rank 0.951 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 142 / 4744 genomes with a hit
Normalized 0.03

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0008033 The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.
  • GO:0017150 Catalysis of the reaction: a 5,6-dihydrouridine in tRNA + NAD(P)+ = a uridine in tRNA + H+ + NAD(P)H.
  • GO:0050660 Binding to FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
  • GO:0002943 The process whereby a uridine in a transfer RNA is converted to dihydrouridine.
  • GO:0010181 Binding to flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
  • GO:0000049 Binding to a transfer RNA.
  • GO:0102262 Catalysis of the reaction: a 5,6-dihydrouracil16 in tRNA + NAD(P) = H+ + a uracil16 in tRNA + NAD(P)H.

Sequence Features

Domain/signature hits from InterPro and related databases.

16 records
Show feature table
Start End DB Term Name
1 300 SUPERFAMILY SSF51395 FMN-linked oxidoreductases
1 234 CDD cd02801 DUS_like_FMN
1 234 InterPro IPR035587 DUS-like, FMN-binding domain
9 288 PANTHER PTHR11082 TRNA-DIHYDROURIDINE SYNTHASE
1 235 Gene3D G3DSA:3.20.20.70 Aldolase class I
1 235 InterPro IPR013785 Aldolase-type TIM barrel
1 276 Pfam PF01207 Dihydrouridine synthase (Dus)
1 276 InterPro IPR035587 DUS-like, FMN-binding domain
1 303 PIRSF PIRSF006621 Dus
1 303 InterPro IPR001269 tRNA-dihydrouridine synthase
1 303 Hamap MF_02043 tRNA-dihydrouridine(16) synthase [dusC].
1 303 InterPro IPR032886 tRNA-dihydrouridine(16) synthase
85 103 ProSitePatterns PS01136 Uncharacterized protein family UPF0034 signature.
85 103 InterPro IPR018517 tRNA-dihydrouridine synthase, conserved site
236 303 Gene3D G3DSA:1.20.225.30 -
236 303 InterPro IPR042270 tRNA-dihydrouridine(16) synthase, C-terminal

3D Structure

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

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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_A0A0H3GVF9
AlphaFold — — full sequence — Viewing
ColabFold VK055_4942
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
1 0.202

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 20.36 0.854
2 1.13 0.009
3 0.96 0.005
4 0.77 0.002