Protein profile

VK055_0704

bacterial regulatory helix-turn-helix, AraC family protein

Genome: KpATCC43816

Gene: AIK79327.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GT33
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Amino acids 255
Annotations 3
Features 25
PDB binders 0
Druggability 0.429

Overview

Basic information about this protein and its source genome.

Accession
VK055_0704
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK79327.1
Status
annotated
Amino acids
255
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 (%)
0.0
Localization
Cytoplasmic
ColabFold pLDDT
89.35

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 0.429
Structure A0A0H3GT33
Pocket Pocket 3
P2Rank 0.656
Structure A0A0H3GT33
Pocket Pocket 1
ColabFold model
FPocket 0.681 · Pocket 13
P2Rank 0.708 · 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.

25 records
Show feature table
Start End DB Term Name
206 249 ProSitePatterns PS00041 Bacterial regulatory proteins, araC family signature.
206 249 InterPro IPR018062 HTH domain AraC-type, conserved site
217 254 Gene3D G3DSA:1.10.10.60 -
8 252 PANTHER PTHR11019 HTH-TYPE TRANSCRIPTIONAL REGULATOR NIMR
171 253 SMART SM00342 aracneu4
171 253 InterPro IPR018060 DNA binding HTH domain, AraC-type
152 255 FunFam G3DSA:1.10.10.60:FF:000132 AraC family transcriptional regulator
15 91 Gene3D G3DSA:2.60.120.10 Jelly Rolls
15 91 InterPro IPR014710 RmlC-like jelly roll fold
161 216 Gene3D G3DSA:1.10.10.60 -
25 114 Pfam PF02311 AraC-like ligand binding domain
25 114 InterPro IPR003313 AraC-type arabinose-binding/dimerisation domain
177 252 Pfam PF12833 Helix-turn-helix domain
177 252 InterPro IPR018060 DNA binding HTH domain, AraC-type
22 187 SUPERFAMILY SSF51182 RmlC-like cupins
22 187 InterPro IPR011051 RmlC-like cupin domain superfamily
212 253 SUPERFAMILY SSF46689 Homeodomain-like
212 253 InterPro IPR009057 Homeobox-like domain superfamily
178 255 ProSiteProfiles PS01124 Bacterial regulatory proteins, araC family DNA-binding domain profile.
178 255 InterPro IPR018060 DNA binding HTH domain, AraC-type
16 111 CDD cd06124 cupin_NimR-like_N
237 253 PRINTS PR00032 AraC bacterial regulatory protein HTH signature
237 253 InterPro IPR020449 Transcription regulator HTH, AraC- type
222 237 PRINTS PR00032 AraC bacterial regulatory protein HTH signature
222 237 InterPro IPR020449 Transcription regulator HTH, 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_A0A0H3GT33
AlphaFold — — full sequence — Viewing
ColabFold VK055_0704
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
3 0.429
2 0.01
6 0.001
18 0.0

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 14.9 0.656
2 5.94 0.242
3 5.6 0.223
4 3.62 0.109