Protein profile

PA0762

RNA polymerase sigma factor AlgU

Genome: NC_002516.2

Gene: PA0762 algU algT Structure source: Experimental + AlphaFold UniProt Q06198
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Amino acids 193
Annotations 19
Features 22
PDB binders 1
Druggability 0.817

Overview

Basic information about this protein and its source genome.

Accession
PA0762
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
PA0762 algU algT
Status
annotated
Amino acids
193
Structure source
Experimental + AlphaFold
GO
GO:0000345 The eubacterial DNA-directed RNA polymerase is a multisubunit complex with a core composed of the essential subunits beta-prime, beta, and two copies of alpha and a fifth nonessential subunit called omega. An additional subunit, a sigma factor, is required for promoter recognition and specificity. GO:0032993 A macromolecular complex containing both protein and DNA molecules. GO:0001216 A DNA-binding transcription factor activity that activates or increases transcription of specific gene sets. GO:0016987 Sigma factors act as the promoter specificity subunit of eubacterial and plant plastid multisubunit RNA polymerases, whose core subunit composition is often described as alpha(2)-beta-beta-prime. Although sigma does not bind DNA on its own, when combined with the core to form the holoenzyme, the sigma factor binds specifically to promoter elements. The sigma subunit is released once elongation begins. 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. GO:0042121 The chemical reactions and pathways resulting in the formation of alginic acid, a hydrophilic polysaccharide occurring in, for example, the cell walls of brown algae (brown seaweeds).

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Gut microbiome off-target
hit
Essential (DEG)
Y
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 0.817
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

19 GO

Gene Ontology (GO)

19
  • GO:0000345 The eubacterial DNA-directed RNA polymerase is a multisubunit complex with a core composed of the essential subunits beta-prime, beta, and two copies of alpha and a fifth nonessential subunit called omega. An additional subunit, a sigma factor, is required for promoter recognition and specificity.
  • GO:0032993 A macromolecular complex containing both protein and DNA molecules.
  • GO:0001216 A DNA-binding transcription factor activity that activates or increases transcription of specific gene sets.
  • GO:0016987 Sigma factors act as the promoter specificity subunit of eubacterial and plant plastid multisubunit RNA polymerases, whose core subunit composition is often described as alpha(2)-beta-beta-prime. Although sigma does not bind DNA on its own, when combined with the core to form the holoenzyme, the sigma factor binds specifically to promoter elements. The sigma subunit is released once elongation begins.
  • 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.
  • GO:0042121 The chemical reactions and pathways resulting in the formation of alginic acid, a hydrophilic polysaccharide occurring in, for example, the cell walls of brown algae (brown seaweeds).
  • GO:0071236 Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
  • GO:0036460 Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of stress acting at the cell envelope.
  • GO:0006352 The initial step of transcription, consisting of the assembly of the RNA polymerase preinitiation complex (PIC) at a gene promoter, as well as the formation of the first few bonds of the RNA transcript. Transcription initiation includes abortive initiation events, which occur when the first few nucleotides are repeatedly synthesized and then released, and ends when promoter clearance takes place.
  • GO:1902201 Any process that stops, prevents or reduces the frequency, rate or extent of bacterial-type flagellum-dependent cell motility.
  • GO:1900189 Any process that activates or increases the frequency, rate or extent of cell adhesion involved in single-species biofilm formation.
  • GO:1900036 Any process that activates or increases the frequency, rate or extent of cellular response to heat.
  • GO:0045893 Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:1902884 Any process that activates or increases the frequency, rate or extent of response to oxidative stress.
  • GO:1900233 Any process that activates or increases the frequency, rate or extent of single-species biofilm formation on inanimate substrate.
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:0032885 Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of polysaccharides.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • 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.

Sequence Features

Domain/signature hits from InterPro and related databases.

22 records
Show feature table
Start End DB Term Name
122 192 Gene3D G3DSA:1.10.10.10 -
122 192 InterPro IPR036388 Winged helix-like DNA-binding domain superfamily
21 186 NCBIfam TIGR02937 sigma-70 family RNA polymerase sigma factor
21 186 InterPro IPR014284 RNA polymerase sigma-70 like domain
132 182 CDD cd06171 Sigma70_r4
1 121 FunFam G3DSA:1.10.1740.10:FF:000001 RNA polymerase sigma factor
132 181 Pfam PF08281 Sigma-70, region 4
132 181 InterPro IPR013249 RNA polymerase sigma factor 70, region 4 type 2
3 190 NCBIfam TIGR02939 RNA polymerase sigma factor RpoE
3 190 InterPro IPR014286 RNA polymerase sigma-70 RpoE type
122 192 FunFam G3DSA:1.10.10.10:FF:000043 RNA polymerase sigma factor
47 78 ProSitePatterns PS01063 Sigma-70 factors ECF subfamily signature.
47 78 InterPro IPR000838 RNA polymerase sigma factor 70, ECF, conserved site
123 187 SUPERFAMILY SSF88659 Sigma3 and sigma4 domains of RNA polymerase sigma factors
123 187 InterPro IPR013324 RNA polymerase sigma factor, region 3/4-like
3 189 PANTHER PTHR43133 RNA POLYMERASE ECF-TYPE SIGMA FACTO
3 189 InterPro IPR039425 RNA polymerase sigma-70 like
25 92 Pfam PF04542 Sigma-70 region 2
25 92 InterPro IPR007627 RNA polymerase sigma-70 region 2
1 108 SUPERFAMILY SSF88946 Sigma2 domain of RNA polymerase sigma factors
1 108 InterPro IPR013325 RNA polymerase sigma factor, region 2
1 121 Gene3D G3DSA:1.10.1740.10 -

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

2 + 1

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

Entry Method Resolution Chain Coverage Links Status
PDB 6IN7
X-ray 1.96 Å B
100.0% 1-193
PDBe RCSB PDBj File
Viewing
PDB 8Z6G
X-ray 2.10 Å B,D,F
100.0% 1-193
PDBe RCSB PDBj File
Loaded
AlphaFold PA0762
AlphaFold — — full sequence — Loaded
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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 0.817
1 0.776

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.

51 records

Highest-confidence structural evidence: ligands co-crystallized with this exact protein. If the source PDB is loaded in TPW, use Open crystal to inspect it in the structure viewer.

Show only:
Ligand Source crystal MW · LogP · TPSA Lipinski PAINS SMILES
NCA
6IN7 1.96 Å Open crystal
122.1 Da LogP 0.18 TPSA 56.0 ✓ Ro5 ✓ Clean c1cc(cnc1)C(=O)N

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.