Protein profile

KP13_31776

tRNA-dihydrouridine synthase B

Genome: KpKP13

Gene: AHE42410.1 dusB Structure source: AlphaFold + ColabFold UniProt A0A0H3H3Q9
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Amino acids 321
Annotations 5
Features 20
PDB binders 0
Druggability 0.382

Overview

Basic information about this protein and its source genome.

Accession
KP13_31776
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE42410.1 dusB
Status
annotated
Amino acids
321
Structure source
AlphaFold + ColabFold
GO
GO:0016491 Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced. GO:0017150 Catalysis of the reaction: a 5,6-dihydrouridine in tRNA + NAD(P)+ = a uridine in tRNA + H+ + NAD(P)H. GO:0008033 The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group. 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.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
37.5
Human E-value
2.01e-13
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
Cytoplasmic
ColabFold pLDDT
93.72

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 0.382
Structure A0A0H3H3Q9
Pocket Pocket 4
P2Rank 0.535
Structure A0A0H3H3Q9
Pocket Pocket 1
ColabFold model
FPocket 0.649 · Pocket 5
P2Rank 0.821 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 200 / 4744 genomes with a hit
Normalized 0.042

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Gene Ontology (GO)

5
  • GO:0016491 Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
  • GO:0017150 Catalysis of the reaction: a 5,6-dihydrouridine in tRNA + NAD(P)+ = a uridine in tRNA + H+ + NAD(P)H.
  • GO:0008033 The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.
  • 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.

Sequence Features

Domain/signature hits from InterPro and related databases.

20 records
Show feature table
Start End DB Term Name
1 321 PIRSF PIRSF006621 Dus
1 321 InterPro IPR001269 tRNA-dihydrouridine synthase
10 319 SUPERFAMILY SSF51395 FMN-linked oxidoreductases
7 247 Gene3D G3DSA:3.20.20.70 Aldolase class I
7 247 InterPro IPR013785 Aldolase-type TIM barrel
1 321 Hamap MF_02042 tRNA-dihydrouridine synthase B [dusB].
1 321 InterPro IPR032887 tRNA-dihydrouridine synthase B
6 247 FunFam G3DSA:3.20.20.70:FF:000051 tRNA-dihydrouridine synthase B
252 321 Gene3D G3DSA:1.10.1200.80 Putative flavin oxidoreducatase; domain 2
252 321 InterPro IPR024036 tRNA-dihydrouridine synthase, putative, C-terminal
3 320 NCBIfam TIGR00737 tRNA dihydrouridine synthase DusB
3 320 InterPro IPR004652 tRNA-dihydrouridine synthase DusB-like
252 321 FunFam G3DSA:1.10.1200.80:FF:000001 tRNA-dihydrouridine synthase B
7 289 PANTHER PTHR45846 TRNA-DIHYDROURIDINE(47) SYNTHASE [NAD(P)(+)]-LIKE
94 112 ProSitePatterns PS01136 Uncharacterized protein family UPF0034 signature.
94 112 InterPro IPR018517 tRNA-dihydrouridine synthase, conserved site
14 318 Pfam PF01207 Dihydrouridine synthase (Dus)
14 318 InterPro IPR035587 DUS-like, FMN-binding domain
11 242 CDD cd02801 DUS_like_FMN
11 242 InterPro IPR035587 DUS-like, FMN-binding domain

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_A0A0H3H3Q9
AlphaFold — — full sequence — Viewing
ColabFold KP13_31776
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 0.382
7 0.252
5 0.251

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 5.77 0.281
2 3.38 0.121
3 2.98 0.097
4 2.43 0.066
5 1.46 0.02