Protein profile

KP13_02943

putative HTH-type transcriptional regulator

Genome: KpKP13

Gene: AHE46215.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GNP2
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Amino acids 301
Annotations 4
Features 29
PDB binders 6
Druggability 0.747

Overview

Basic information about this protein and its source genome.

Accession
KP13_02943
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE46215.1
Status
annotated
Amino acids
301
Structure source
AlphaFold + ColabFold
GO
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: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:0006351 The synthesis of an RNA transcript from a DNA template.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
59.136
DEG E-value
8.8e-128
Localization
Cytoplasmic
ColabFold pLDDT
86.31

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 0.747
Structure A0A0H3GNP2
Pocket Pocket 4
P2Rank 0.83
Structure A0A0H3GNP2
Pocket Pocket 1
ColabFold model
FPocket 0.67 · Pocket 8
P2Rank 0.833 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 98 / 4744 genomes with a hit
Normalized 0.021

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: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: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:0006351 The synthesis of an RNA transcript from a DNA template.

Sequence Features

Domain/signature hits from InterPro and related databases.

29 records
Show feature table
Start End DB Term Name
1 60 ProSiteProfiles PS50931 LysR-type HTH domain profile.
1 60 InterPro IPR000847 Transcription regulator HTH, LysR
1 7 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
24 301 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
6 112 SUPERFAMILY SSF46785 Winged helix DNA-binding domain
6 112 InterPro IPR036390 Winged helix DNA-binding domain superfamily
1 23 Phobius SIGNAL_PEPTIDE Signal peptide region
1 87 Gene3D G3DSA:1.10.10.10 -
1 87 InterPro IPR036388 Winged helix-like DNA-binding domain superfamily
160 262 Gene3D G3DSA:3.40.190.10 -
90 293 Pfam PF03466 LysR substrate binding domain
90 293 InterPro IPR005119 LysR, substrate-binding
41 52 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
41 52 InterPro IPR000847 Transcription regulator HTH, LysR
31 41 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
31 41 InterPro IPR000847 Transcription regulator HTH, LysR
20 31 PRINTS PR00039 LysR bacterial regulatory protein HTH signature
20 31 InterPro IPR000847 Transcription regulator HTH, LysR
8 15 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
160 262 FunFam G3DSA:3.40.190.10:FF:000126 Transcriptional regulator, LysR family
7 64 Pfam PF00126 Bacterial regulatory helix-turn-helix protein, lysR family
7 64 InterPro IPR000847 Transcription regulator HTH, LysR
1 86 FunFam G3DSA:1.10.10.10:FF:000001 LysR family transcriptional regulator
16 23 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
6 293 PANTHER PTHR30537 HTH-TYPE TRANSCRIPTIONAL REGULATOR
108 289 Gene3D G3DSA:3.40.190.10 -
91 289 CDD cd08478 PBP2_CrgA
1 292 NCBIfam NF040888 DNA-binding transcriptional regulator YafC
91 297 SUPERFAMILY SSF53850 Periplasmic binding protein-like II

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

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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_A0A0H3GNP2
AlphaFold — — full sequence — Viewing
ColabFold KP13_02943
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
4 0.747

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 18.27 0.819
2 5.61 0.27
3 1.31 0.014

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
8TR
5YDV
Q7CP75 52.5 Da LogP 0.13 TPSA 20.2 ✓ Ro5 ✓ Clean OCl
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.