Protein profile

VK055_0871

bacterial regulatory helix-turn-helix, AraC family protein

Genome: KpATCC43816

Gene: marA AIK79494.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GN41
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Amino acids 124
Annotations 4
Features 16
PDB binders 0
Druggability 0.132

Overview

Basic information about this protein and its source genome.

Accession
VK055_0871
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
marA AIK79494.1
Status
annotated
Amino acids
124
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. GO:0046677 Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
92.742
DEG E-value
4.47e-85
Localization
Cytoplasmic
ColabFold pLDDT
92.99

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 0.132
Structure A0A0H3GN41
Pocket Pocket 1
P2Rank 0.085
Structure A0A0H3GN41
Pocket Pocket 1
ColabFold model
FPocket 0.479 · Pocket 8
P2Rank 0.07 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 92 / 4744 genomes with a hit
Normalized 0.019

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Gene Ontology (GO)

4
  • 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.
  • GO:0046677 Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.

Sequence Features

Domain/signature hits from InterPro and related databases.

16 records
Show feature table
Start End DB Term Name
62 104 ProSitePatterns PS00041 Bacterial regulatory proteins, araC family signature.
62 104 InterPro IPR018062 HTH domain AraC-type, conserved site
1 62 Gene3D G3DSA:1.10.10.60 -
10 59 SUPERFAMILY SSF46689 Homeodomain-like
10 59 InterPro IPR009057 Homeobox-like domain superfamily
63 124 Gene3D G3DSA:1.10.10.60 -
25 108 SMART SM00342 aracneu4
25 108 InterPro IPR018060 DNA binding HTH domain, AraC-type
62 109 SUPERFAMILY SSF46689 Homeodomain-like
62 109 InterPro IPR009057 Homeobox-like domain superfamily
12 110 ProSiteProfiles PS01124 Bacterial regulatory proteins, araC family DNA-binding domain profile.
12 110 InterPro IPR018060 DNA binding HTH domain, AraC-type
7 59 FunFam G3DSA:1.10.10.60:FF:000013 DNA-binding transcriptional activator MarA
32 108 Pfam PF12833 Helix-turn-helix domain
32 108 InterPro IPR018060 DNA binding HTH domain, AraC-type
1 118 PANTHER PTHR47504 RIGHT ORIGIN-BINDING PROTEIN

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_A0A0H3GN41
AlphaFold — — full sequence — Viewing
ColabFold VK055_0871
ColabFold — — full sequence — Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

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 1.96 0.041