Protein profile

VK055_4036

bacterial regulatory helix-turn-helix, AraC family protein

Genome: KpATCC43816

Gene: AIK82583.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GVP6
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Amino acids 289
Annotations 3
Features 27
PDB binders 0
Druggability 0.876

Overview

Basic information about this protein and its source genome.

Accession
VK055_4036
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK82583.1
Status
annotated
Amino acids
289
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 (%)
30.303
Localization
Cytoplasmic
ColabFold pLDDT
92.56

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 0.876
Structure A0A0H3GVP6
Pocket Pocket 22
P2Rank 0.989
Structure A0A0H3GVP6
Pocket Pocket 1
ColabFold model
FPocket 0.803 · Pocket 4
P2Rank 0.988 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 21 / 4744 genomes with a hit
Normalized 0.004

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.

27 records
Show feature table
Start End DB Term Name
135 288 Pfam PF06445 GyrI-like small molecule binding domain
135 288 InterPro IPR029442 GyrI-like small molecule binding domain
81 96 PRINTS PR00032 AraC bacterial regulatory protein HTH signature
81 96 InterPro IPR020449 Transcription regulator HTH, AraC- type
96 112 PRINTS PR00032 AraC bacterial regulatory protein HTH signature
96 112 InterPro IPR020449 Transcription regulator HTH, AraC- type
135 289 SMART SM00871 AraC_E_bind_2
135 289 InterPro IPR010499 Bacterial transcription activator, effector binding
65 108 ProSitePatterns PS00041 Bacterial regulatory proteins, araC family signature.
65 108 InterPro IPR018062 HTH domain AraC-type, conserved site
12 62 SUPERFAMILY SSF46689 Homeodomain-like
12 62 InterPro IPR009057 Homeobox-like domain superfamily
10 69 Gene3D G3DSA:1.10.10.60 -
34 114 Pfam PF12833 Helix-turn-helix domain
34 114 InterPro IPR018060 DNA binding HTH domain, AraC-type
28 112 SMART SM00342 aracneu4
28 112 InterPro IPR018060 DNA binding HTH domain, AraC-type
135 288 SUPERFAMILY SSF55136 Probable bacterial effector-binding domain
135 288 InterPro IPR011256 Regulatory factor, effector binding domain superfamily
70 127 Gene3D G3DSA:1.10.10.60 -
4 288 PANTHER PTHR40055 TRANSCRIPTIONAL REGULATOR YGIV-RELATED
135 289 Gene3D G3DSA:3.20.80.10 Regulatory factor, effector binding domain
135 289 InterPro IPR011256 Regulatory factor, effector binding domain superfamily
64 120 SUPERFAMILY SSF46689 Homeodomain-like
64 120 InterPro IPR009057 Homeobox-like domain superfamily
15 114 ProSiteProfiles PS01124 Bacterial regulatory proteins, araC family DNA-binding domain profile.
15 114 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_A0A0H3GVP6
AlphaFold — — full sequence — Viewing
ColabFold VK055_4036
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
22 0.876

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 55.79 0.984
2 7.27 0.379
3 3.88 0.152