Protein profile

VK055_0898

bacterial regulatory helix-turn-helix, AraC family protein

Genome: KpATCC43816

Gene: AIK79521.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GPK6
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Amino acids 308
Annotations 3
Features 18
PDB binders 0
Druggability 0.985

Overview

Basic information about this protein and its source genome.

Accession
VK055_0898
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK79521.1
Status
annotated
Amino acids
308
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 (%)
30.631
Localization
Cytoplasmic
ColabFold pLDDT
86.56

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 0.985
Structure A0A0H3GPK6
Pocket Pocket 1
P2Rank 0.832
Structure A0A0H3GPK6
Pocket Pocket 1
ColabFold model
FPocket 0.468 · Pocket 3
P2Rank 0.422 · Pocket 1
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 3 / 4744 genomes with a hit
Normalized 0.001

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.

18 records
Show feature table
Start End DB Term Name
87 103 PRINTS PR00032 AraC bacterial regulatory protein HTH signature
87 103 InterPro IPR020449 Transcription regulator HTH, AraC- type
72 87 PRINTS PR00032 AraC bacterial regulatory protein HTH signature
72 87 InterPro IPR020449 Transcription regulator HTH, AraC- type
122 289 Gene3D G3DSA:3.20.80.10 Regulatory factor, effector binding domain
122 289 InterPro IPR011256 Regulatory factor, effector binding domain superfamily
6 108 Gene3D G3DSA:1.10.10.60 -
7 105 ProSiteProfiles PS01124 Bacterial regulatory proteins, araC family DNA-binding domain profile.
7 105 InterPro IPR018060 DNA binding HTH domain, AraC-type
202 286 SUPERFAMILY SSF55136 Probable bacterial effector-binding domain
202 286 InterPro IPR011256 Regulatory factor, effector binding domain superfamily
56 105 SUPERFAMILY SSF46689 Homeodomain-like
56 105 InterPro IPR009057 Homeobox-like domain superfamily
5 264 PANTHER PTHR47504 RIGHT ORIGIN-BINDING PROTEIN
20 103 SMART SM00342 aracneu4
20 103 InterPro IPR018060 DNA binding HTH domain, AraC-type
26 103 Pfam PF12833 Helix-turn-helix domain
26 103 InterPro IPR018060 DNA binding HTH domain, AraC-type

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_A0A0H3GPK6
AlphaFold — — full sequence — Viewing
ColabFold VK055_0898
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 0.985

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 7.67 0.406
2 4.97 0.225
3 3.51 0.129
4 3.41 0.123
5 2.42 0.065