Protein profile

VK055_4981

helix-turn-helix family protein

Genome: KpATCC43816

Gene: AIK83507.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GSN9
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Amino acids 333
Annotations 4
Features 23
PDB binders 0
Druggability 0.713

Overview

Basic information about this protein and its source genome.

Accession
VK055_4981
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK83507.1
Status
annotated
Amino acids
333
Structure source
AlphaFold + ColabFold
GO
GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription. 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:0000976 Binding to a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA. The transcribed region might be described as a gene, cistron, or operon.

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 (%)
29.752
Localization
Cytoplasmic
ColabFold pLDDT
91.22

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 0.713
Structure A0A0H3GSN9
Pocket Pocket 1
P2Rank 0.516
Structure A0A0H3GSN9
Pocket Pocket 1
ColabFold model
FPocket 0.51 · Pocket 1
P2Rank 0.743 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 18 / 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.

4 GO

Gene Ontology (GO)

4
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • 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:0000976 Binding to a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA. The transcribed region might be described as a gene, cistron, or operon.

Sequence Features

Domain/signature hits from InterPro and related databases.

23 records
Show feature table
Start End DB Term Name
65 152 Gene3D G3DSA:3.40.50.2300 -
64 329 SUPERFAMILY SSF53822 Periplasmic binding protein-like I
64 329 InterPro IPR028082 Periplasmic binding protein-like I
1 64 Gene3D G3DSA:1.10.260.40 -
1 64 InterPro IPR010982 Lambda repressor-like, DNA-binding domain superfamily
4 61 SUPERFAMILY SSF47413 lambda repressor-like DNA-binding domains
4 61 InterPro IPR010982 Lambda repressor-like, DNA-binding domain superfamily
4 61 ProSiteProfiles PS50932 LacI-type HTH domain profile.
4 61 InterPro IPR000843 LacI-type HTH domain
2 27 ProSiteProfiles PS50943 Cro/C1-type HTH domain profile.
2 27 InterPro IPR001387 Cro/C1-type helix-turn-helix domain
3 76 SMART SM00354 laci3
3 76 InterPro IPR000843 LacI-type HTH domain
6 24 ProSitePatterns PS00356 LacI-type HTH domain signature.
67 275 Pfam PF13407 Periplasmic binding protein domain
67 275 InterPro IPR025997 Periplasmic binding protein
156 332 Gene3D G3DSA:3.40.50.2300 -
7 61 CDD cd01392 HTH_LacI
7 61 InterPro IPR000843 LacI-type HTH domain
67 330 CDD cd06274 PBP1_FruR
1 304 PANTHER PTHR30146 LACI-RELATED TRANSCRIPTIONAL REPRESSOR
5 53 Pfam PF00356 Bacterial regulatory proteins, lacI family
5 53 InterPro IPR000843 LacI-type HTH domain

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

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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_A0A0H3GSN9
AlphaFold — — full sequence — Viewing
ColabFold VK055_4981
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 0.713
8 0.622

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 7.98 0.424