Protein profile

VK055_3263

cupin domain protein

Genome: KpATCC43816

Gene: AIK81824.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GPN3
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Amino acids 278
Annotations 6
Features 29
PDB binders 0
Druggability 0.546

Overview

Basic information about this protein and its source genome.

Accession
VK055_3263
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81824.1
Status
annotated
Amino acids
278
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:0019299 OBSOLETE. The chemical reactions and pathways involving rhamnose, the hexose 6-deoxy-L-mannose. Rhamnose occurs commonly as a compound of plant glycosides, in polysaccharides of gums and mucilages, and in bacterial polysaccharides. It is also a component of some plant cell wall polysaccharides and frequently acts as the sugar components of flavonoids. GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription. GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0045893 Any process that activates or increases 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 (%)
33.673
Localization
Cytoplasmic
ColabFold pLDDT
92.22

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 0.546
Structure A0A0H3GPN3
Pocket Pocket 2
P2Rank 0.5
Structure A0A0H3GPN3
Pocket Pocket 1
ColabFold model
FPocket 0.256 · Pocket 8
P2Rank 0.524 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
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.

6 GO

Gene Ontology (GO)

6
  • 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:0019299 OBSOLETE. The chemical reactions and pathways involving rhamnose, the hexose 6-deoxy-L-mannose. Rhamnose occurs commonly as a compound of plant glycosides, in polysaccharides of gums and mucilages, and in bacterial polysaccharides. It is also a component of some plant cell wall polysaccharides and frequently acts as the sugar components of flavonoids.
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0045893 Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.

Sequence Features

Domain/signature hits from InterPro and related databases.

29 records
Show feature table
Start End DB Term Name
12 157 SUPERFAMILY SSF51215 Regulatory protein AraC
12 157 InterPro IPR037923 Transcription regulator HTH-like
16 160 CDD cd06977 cupin_RhaR_RhaS-like_N
16 160 InterPro IPR047220 HTH-type transcriptional activator RhaR/RhaS, N-terminal domain
254 270 PRINTS PR00032 AraC bacterial regulatory protein HTH signature
254 270 InterPro IPR020449 Transcription regulator HTH, AraC- type
239 254 PRINTS PR00032 AraC bacterial regulatory protein HTH signature
239 254 InterPro IPR020449 Transcription regulator HTH, AraC- type
193 271 Pfam PF12833 Helix-turn-helix domain
193 271 InterPro IPR018060 DNA binding HTH domain, AraC-type
1 273 Hamap MF_01534 HTH-type transcriptional activator RhaS [rhaS].
1 273 InterPro IPR023609 Transcription regulator HTH, RhaS
229 276 Gene3D G3DSA:1.10.10.60 -
16 154 Pfam PF02311 AraC-like ligand binding domain
16 154 InterPro IPR003313 AraC-type arabinose-binding/dimerisation domain
170 221 SUPERFAMILY SSF46689 Homeodomain-like
170 221 InterPro IPR009057 Homeobox-like domain superfamily
168 228 Gene3D G3DSA:1.10.10.60 -
174 272 ProSiteProfiles PS01124 Bacterial regulatory proteins, araC family DNA-binding domain profile.
174 272 InterPro IPR018060 DNA binding HTH domain, AraC-type
187 270 SMART SM00342 aracneu4
187 270 InterPro IPR018060 DNA binding HTH domain, AraC-type
223 272 SUPERFAMILY SSF46689 Homeodomain-like
223 272 InterPro IPR009057 Homeobox-like domain superfamily
224 266 ProSitePatterns PS00041 Bacterial regulatory proteins, araC family signature.
224 266 InterPro IPR018062 HTH domain AraC-type, conserved site
24 273 PANTHER PTHR46796 HTH-TYPE TRANSCRIPTIONAL ACTIVATOR RHAS-RELATED
4 91 Gene3D G3DSA:2.60.120.10 Jelly Rolls
4 91 InterPro IPR014710 RmlC-like jelly roll fold

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_A0A0H3GPN3
AlphaFold — — full sequence — Viewing
ColabFold VK055_3263
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
2 0.546
1 0.037
20 0.005
9 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 10.84 0.5
2 8.13 0.366
3 5.78 0.233
4 4.62 0.165
5 1.86 0.03