Protein profile

VK055_4944

PRD domain protein

Genome: KpATCC43816

Gene: AIK83470.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GQW6
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Amino acids 277
Annotations 3
Features 24
PDB binders 0
Druggability 0.229

Overview

Basic information about this protein and its source genome.

Accession
VK055_4944
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK83470.1
Status
annotated
Amino acids
277
Structure source
AlphaFold + ColabFold
GO
GO:0045893 Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription. GO:0003723 Binding to an RNA molecule or a portion thereof. GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
32.364
Localization
Cytoplasmic
ColabFold pLDDT
93.01

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 0.229
Structure A0A0H3GQW6
Pocket Pocket 14
P2Rank 0.142
Structure A0A0H3GQW6
Pocket Pocket 1
ColabFold model
FPocket 0.415 · Pocket 1
P2Rank 0.237 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 55 / 4744 genomes with a hit
Normalized 0.012

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Gene Ontology (GO)

3
  • GO:0045893 Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:0003723 Binding to an RNA molecule or a portion thereof.
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.

Sequence Features

Domain/signature hits from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
64 166 Gene3D G3DSA:1.10.1790.10 PRD domain
97 109 ProSitePatterns PS00654 PRD domain signature.
97 109 InterPro IPR001550 Transcription antiterminator, conserved site
87 161 Pfam PF00874 PRD domain
87 161 InterPro IPR011608 PRD domain
179 271 Pfam PF00874 PRD domain
179 271 InterPro IPR011608 PRD domain
59 166 SUPERFAMILY SSF63520 PTS-regulatory domain, PRD
59 166 InterPro IPR036634 PRD domain superfamily
167 275 Gene3D G3DSA:1.10.1790.10 PRD domain
2 273 PANTHER PTHR30185 CRYPTIC BETA-GLUCOSIDE BGL OPERON ANTITERMINATOR
65 169 ProSiteProfiles PS51372 PRD domain profile.
65 169 InterPro IPR011608 PRD domain
170 277 ProSiteProfiles PS51372 PRD domain profile.
170 277 InterPro IPR011608 PRD domain
1 54 SUPERFAMILY SSF50151 SacY-like RNA-binding domain
1 54 InterPro IPR036650 CAT RNA-binding domain superfamily
170 273 SUPERFAMILY SSF63520 PTS-regulatory domain, PRD
170 273 InterPro IPR036634 PRD domain superfamily
1 54 Pfam PF03123 CAT RNA binding domain
1 54 InterPro IPR004341 CAT RNA-binding domain
1 54 Gene3D G3DSA:2.30.24.10 -
1 59 SMART SM01061 CAT_RBD_2
1 59 InterPro IPR004341 CAT RNA-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.

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_A0A0H3GQW6
AlphaFold — — full sequence — Viewing
ColabFold VK055_4944
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
14 0.229

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 2.95 0.095