Protein profile

VK055_2860

bacterial regulatory helix-turn-helix, AraC family protein

Genome: KpATCC43816

Gene: AIK81449.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GME6
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Amino acids 274
Annotations 3
Features 16
PDB binders 0
Druggability 0.267

Overview

Basic information about this protein and its source genome.

Accession
VK055_2860
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81449.1
Status
annotated
Amino acids
274
Structure source
AlphaFold + ColabFold
GO
GO:0043565 Binding to DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding. GO:0003700 A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons. 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 (%)
32.143
Localization
Cytoplasmic
ColabFold pLDDT
91.88

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 0.267
Structure A0A0H3GME6
Pocket Pocket 24
P2Rank 0.62
Structure A0A0H3GME6
Pocket Pocket 1
ColabFold model
FPocket 0.518 · Pocket 3
P2Rank 0.676 · Pocket 1
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 76 / 4744 genomes with a hit
Normalized 0.016

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:0043565 Binding to DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
  • GO:0003700 A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.
  • 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.

16 records
Show feature table
Start End DB Term Name
186 268 SMART SM00342 aracneu4
186 268 InterPro IPR018060 DNA binding HTH domain, AraC-type
32 127 SUPERFAMILY SSF51215 Regulatory protein AraC
32 127 InterPro IPR037923 Transcription regulator HTH-like
24 113 Pfam PF02311 AraC-like ligand binding domain
24 113 InterPro IPR003313 AraC-type arabinose-binding/dimerisation domain
222 271 SUPERFAMILY SSF46689 Homeodomain-like
222 271 InterPro IPR009057 Homeobox-like domain superfamily
19 271 PANTHER PTHR46796 HTH-TYPE TRANSCRIPTIONAL ACTIVATOR RHAS-RELATED
173 270 ProSiteProfiles PS01124 Bacterial regulatory proteins, araC family DNA-binding domain profile.
173 270 InterPro IPR018060 DNA binding HTH domain, AraC-type
192 269 Pfam PF12833 Helix-turn-helix domain
192 269 InterPro IPR018060 DNA binding HTH domain, AraC-type
168 274 Gene3D G3DSA:1.10.10.60 -
170 219 SUPERFAMILY SSF46689 Homeodomain-like
170 219 InterPro IPR009057 Homeobox-like domain 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_A0A0H3GME6
AlphaFold — — full sequence — Viewing
ColabFold VK055_2860
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
24 0.267
1 0.255

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 11.03 0.591
2 7.76 0.411
3 1.61 0.026