Protein profile

PA4165

transcriptional regulator

Genome: NC_002516.2

Gene: PA4165 Structure source: AlphaFold UniProt Q9HWL6
Amino acids 496
Annotations 6
Features 24
PDB binders 21
Druggability 0.89

Overview

Basic information about this protein and its source genome.

Accession
PA4165
Gene
PA4165
Status
annotated
Amino acids
496
Structure source
AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
26.891
Human E-value
4.91e-07
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Unknown

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 0.89
Structure
Pocket

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: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.
  • GO:0030170 Binding to pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0009058 A cellular process consisting of the biochemical pathways by which a living organism synthesizes chemical substances. This typically represents the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

Sequence Features

Domain/signature hits from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
47 61 PRINTS PR00035 GntR bacterial regulatory protein HTH signature
47 61 InterPro IPR000524 Transcription regulator HTH, GntR
61 77 PRINTS PR00035 GntR bacterial regulatory protein HTH signature
61 77 InterPro IPR000524 Transcription regulator HTH, GntR
19 91 SUPERFAMILY SSF46785 Winged helix DNA-binding domain
19 91 InterPro IPR036390 Winged helix DNA-binding domain superfamily
21 104 Gene3D G3DSA:1.10.10.10 -
21 104 InterPro IPR036388 Winged helix-like DNA-binding domain superfamily
28 87 SMART SM00345 gntr3
28 87 InterPro IPR000524 Transcription regulator HTH, GntR
23 88 CDD cd07377 WHTH_GntR
23 88 InterPro IPR000524 Transcription regulator HTH, GntR
125 483 Gene3D G3DSA:3.40.640.10 -
125 483 InterPro IPR015421 Pyridoxal phosphate-dependent transferase, major domain
165 368 Pfam PF00155 Aminotransferase class I and II
165 368 InterPro IPR004839 Aminotransferase, class I/classII
26 87 Pfam PF00392 Bacterial regulatory proteins, gntR family
26 87 InterPro IPR000524 Transcription regulator HTH, GntR
133 487 CDD cd00609 AAT_like
22 90 ProSiteProfiles PS50949 GntR-type HTH domain profile.
22 90 InterPro IPR000524 Transcription regulator HTH, GntR
2 490 PANTHER PTHR46577 HTH-TYPE TRANSCRIPTIONAL REGULATORY PROTEIN GABR
133 491 SUPERFAMILY SSF53383 PLP-dependent transferases
133 491 InterPro IPR015424 Pyridoxal phosphate-dependent transferase

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 + 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 PA4165
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
1 0.89

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.

171 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
09M Q8N5Z0 407.3 Da LogP 1.87 TPSA 154.1 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CNC2=Cc3ccccc3N(C2=O)O…
0K5 Q8N5Z0 499.4 Da LogP 3.66 TPSA 163.4 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CNC2=Cc3cc(ccc3N(C2=O)…
0KE Q8N5Z0 437.3 Da LogP 1.88 TPSA 163.4 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CNC2=Cc3ccc(cc3N(C2=O)…
0L0 Q8N5Z0 527.5 Da LogP 3.47 TPSA 163.4 1 viol. ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CNC2=Cc3cc(c(cc3N(C2=O…
0LD Q8N5Z0 473.4 Da LogP 2.05 TPSA 172.0 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CNC2=Cc3cn(nc3N(C2=O)O…
0X1 Q8N5Z0 523.4 Da LogP 3.60 TPSA 171.3 1 viol. ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CNC2=Cc3cc(ccc3N4C2=NN…
3EE O57946 207.2 Da LogP 0.50 TPSA 97.5 ✓ Ro5 ✓ Clean c1ccc(c(c1)C(=O)CC(=O)C(=O)O)N
76U P94426 366.3 Da LogP 1.00 TPSA 149.2 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CN[C@@H](CCC(=O)O)CF)O
7AR Q8N5Z0 364.2 Da LogP 3.29 TPSA 74.7 ✓ Ro5 ✓ Clean c1ccc(cc1)C[C@H](C(=O)O)N2C(=O)c3cc(c(cc3C2=O)C…
ABU P94426 103.1 Da LogP -0.19 TPSA 63.3 ✓ Ro5 ✓ Clean C(CC(=O)O)CN
AKG O57946 146.1 Da LogP -0.50 TPSA 91.7 ✓ Ro5 ✓ Clean C(CC(=O)O)C(=O)C(=O)O
BF5 Q8N5Z0 363.4 Da LogP -0.55 TPSA 105.3 ✓ Ro5 ✓ Clean C[C@H]1COC2=C3N1C=C(C(=C3CC(=C2N4CCN(CC4)N)F)O)…
G9A O57946 130.1 Da LogP 0.10 TPSA 74.6 ✓ Ro5 ✓ Clean C(/C=C/C(=O)O)C(=O)O
KYA O57946 189.2 Da LogP 1.64 TPSA 70.4 ✓ Ro5 ✓ Clean c1ccc2c(c1)c(cc(n2)C(=O)O)O
KYN Q8N5Z0 208.2 Da LogP 0.25 TPSA 106.4 ✓ Ro5 ✓ Clean c1ccc(c(c1)C(=O)C[C@@H](C(=O)O)N)N
MVQ Q8N5Z0 453.6 Da LogP 2.57 TPSA 89.4 ✓ Ro5 ✓ Clean CN1C(=O)c2c(sc(n2)N3CCC[C@@H]3C(=O)NCc4ccccc4)N…
MVT Q8N5Z0 441.5 Da LogP 4.74 TPSA 72.0 ✓ Ro5 ✓ Clean CC(C)[C@@H](Cc1nnc(s1)NS(=O)(=O)c2cc(cc(c2)F)F)…
N5F Q72LL6 392.3 Da LogP 0.50 TPSA 186.5 1 viol. ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CN[C@@H](CCCC(=O)O)C(=…
PGU Q72LL6 378.3 Da LogP 0.11 TPSA 186.5 1 viol. ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CN[C@@H](CCC(=O)O)C(=O…
PMP Q8N5Z0 248.2 Da LogP 0.16 TPSA 125.9 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CN)O
QL4 P94426 438.4 Da LogP 2.44 TPSA 158.8 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)/C=N/[C@@H](CCC(=O)O)C…

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.