Protein profile

VK055_4835

lrhA transcriptional repressor LrhA transcriptional dual regulator

Genome: KpATCC43816

Gene: AIK83362.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GR60
Export view
Amino acids 308
Annotations 3
Features 23
PDB binders 8
Druggability 0.155

Overview

Basic information about this protein and its source genome.

Accession
VK055_4835
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK83362.1
Status
annotated
Amino acids
308
Structure source
AlphaFold + ColabFold
GO
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:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

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 (%)
31.667
Localization
Unknown
ColabFold pLDDT
83.18

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 0.155
Structure A0A0H3GR60
Pocket Pocket 6
P2Rank 0.047
Structure A0A0H3GR60
Pocket Pocket 1
ColabFold model
FPocket 0.063 · Pocket 18
P2Rank 0.081 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 105 / 4744 genomes with a hit
Normalized 0.022

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: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:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

Sequence Features

Domain/signature hits from InterPro and related databases.

23 records
Show feature table
Start End DB Term Name
169 262 Gene3D G3DSA:3.40.190.10 -
101 284 CDD cd08439 PBP2_LrhA_like
13 71 Pfam PF00126 Bacterial regulatory helix-turn-helix protein, lysR family
13 71 InterPro IPR000847 Transcription regulator HTH, LysR
5 91 Gene3D G3DSA:1.10.10.10 -
5 91 InterPro IPR036388 Winged helix-like DNA-binding domain superfamily
49 60 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
49 60 InterPro IPR000847 Transcription regulator HTH, LysR
39 49 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
39 49 InterPro IPR000847 Transcription regulator HTH, LysR
28 39 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
28 39 InterPro IPR000847 Transcription regulator HTH, LysR
103 266 Gene3D G3DSA:3.40.190.10 -
11 68 ProSiteProfiles PS50931 LysR-type HTH domain profile.
11 68 InterPro IPR000847 Transcription regulator HTH, LysR
169 262 FunFam G3DSA:3.40.190.10:FF:000069 HTH-type transcriptional regulator lrhA
96 284 Pfam PF03466 LysR substrate binding domain
96 284 InterPro IPR005119 LysR, substrate-binding
97 291 SUPERFAMILY SSF53850 Periplasmic binding protein-like II
10 88 SUPERFAMILY SSF46785 Winged helix DNA-binding domain
10 88 InterPro IPR036390 Winged helix DNA-binding domain superfamily
10 291 PANTHER PTHR30579 TRANSCRIPTIONAL REGULATOR
4 92 FunFam G3DSA:1.10.10.10:FF:000112 HTH-type transcriptional regulator lrhA

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

Loading 3D structure...

Legend High Medium Low

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_A0A0H3GR60
AlphaFold — — full sequence — Viewing
ColabFold VK055_4835
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 1.7 0.03
2 0.95 0.005

Ligand evidence

Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.

58 records

Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
1PS
6G1B
Q8NP91 201.2 Da LogP -0.09 TPSA 61.1 ✓ Ro5 ✓ Clean c1cc[n+](cc1)CCCS(=O)(=O)[O-]
AKG
5Y2V
P73862 146.1 Da LogP -0.50 TPSA 91.7 ✓ Ro5 ✓ Clean C(CC(=O)O)C(=O)C(=O)O
BEZ
2F7A
O68014 122.1 Da LogP 1.38 TPSA 37.3 ✓ Ro5 ✓ Clean c1ccc(cc1)C(=O)O
FLC
5ZZO
A0A0D1IHL7 189.1 Da LogP -5.25 TPSA 140.6 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(CC(=O)[O-])(C(=O)[O-])O
FOR
6G1D
Q8NP91 30.0 Da LogP -0.18 TPSA 17.1 ✓ Ro5 ✓ Clean C=O
MLI
4IHS
O68014 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[O-]
PEO
6G1B
Q8NP91 34.0 Da LogP 0.02 TPSA 40.5 ✓ Ro5 ✓ Clean OO
RUB
5Z49
Q9F1R2 310.1 Da LogP -2.50 TPSA 191.0 1 viol. ✓ Clean C([C@H]([C@H](C(=O)COP(=O)(O)O)O)O)OP(=O)(O)O

PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.