Protein profile

PA5085

transcriptional regulator

Genome: NC_002516.2

Gene: PA5085 Structure source: AlphaFold UniProt Q9HU98
Export view
Amino acids 318
Annotations 5
Features 22
PDB binders 6
Druggability 0.878

Overview

Basic information about this protein and its source genome.

Accession
PA5085
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
PA5085
Status
annotated
Amino acids
318
Structure source
AlphaFold
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: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:0009089 OBSOLETE. The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate. GO:0010628 Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product (protein or RNA). 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
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Cytoplasmic

Selected Druggability evidence

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 0.878
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Gene Ontology (GO)

5
  • 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: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:0009089 OBSOLETE. The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate.
  • GO:0010628 Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product (protein or RNA).
  • 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.

22 records
Show feature table
Start End DB Term Name
17 107 Gene3D G3DSA:1.10.10.10 -
17 107 InterPro IPR036388 Winged helix-like DNA-binding domain superfamily
45 55 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
45 55 InterPro IPR000847 Transcription regulator HTH, LysR
34 45 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
34 45 InterPro IPR000847 Transcription regulator HTH, LysR
55 66 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
55 66 InterPro IPR000847 Transcription regulator HTH, LysR
16 127 SUPERFAMILY SSF46785 Winged helix DNA-binding domain
16 127 InterPro IPR036390 Winged helix DNA-binding domain superfamily
105 312 SUPERFAMILY SSF53850 Periplasmic binding protein-like II
180 283 Gene3D G3DSA:3.40.190.10 -
17 74 ProSiteProfiles PS50931 LysR-type HTH domain profile.
17 74 InterPro IPR000847 Transcription regulator HTH, LysR
180 283 FunFam G3DSA:3.40.190.10:FF:000320 LysR family transcriptional regulator
19 77 Pfam PF00126 Bacterial regulatory helix-turn-helix protein, lysR family
19 77 InterPro IPR000847 Transcription regulator HTH, LysR
77 104 Coils Coil Coil
103 308 Pfam PF03466 LysR substrate binding domain
103 308 InterPro IPR005119 LysR, substrate-binding
108 293 Gene3D G3DSA:3.40.190.10 -
15 318 PANTHER PTHR30427 TRANSCRIPTIONAL ACTIVATOR PROTEIN LYSR

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 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA5085
AlphaFold — — full sequence — Viewing
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 0.756
3 0.66
9 0.515

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.

56 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
6DB
5VVI
P0A4T4 246.3 Da LogP -1.23 TPSA 148.5 1 viol. ✓ Clean [H]/N=C(/N)\NCCC[C@@H](C(=O)O)N[C@H](C)C(=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
CCU
3GLB
P07774 142.1 Da LogP 0.27 TPSA 74.6 ✓ Ro5 ✓ Clean C(=C/C(=O)O)/C=C\C(=O)O
MLI
4IHS
O68014 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[O-]
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.