Protein profile

KP13_00417

Redox-sensitive transcriptional activator soxR

Genome: KpKP13

Gene: soxR AHE46845.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GL27
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Amino acids 152
Annotations 6
Features 26
PDB binders 2
Druggability 0.411

Overview

Basic information about this protein and its source genome.

Accession
KP13_00417
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
soxR AHE46845.1
Status
annotated
Amino acids
152
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:0006979 Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals. GO:0051537 Binding to a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0046872 Binding to a metal ion.

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 (%)
64.539
DEG E-value
7.57e-63
Localization
Cytoplasmic
ColabFold pLDDT
78.89

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 0.411
Structure A0A0H3GL27
Pocket Pocket 1
P2Rank 0.038
Structure A0A0H3GL27
Pocket Pocket 1
ColabFold model
FPocket 0.387 · Pocket 8
P2Rank 0.029 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 119 / 4744 genomes with a hit
Normalized 0.025

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: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:0006979 Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
  • GO:0051537 Binding to a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0046872 Binding to a metal ion.

Sequence Features

Domain/signature hits from InterPro and related databases.

26 records
Show feature table
Start End DB Term Name
12 134 SUPERFAMILY SSF46955 Putative DNA-binding domain
12 134 InterPro IPR009061 Putative DNA-binding domain superfamily
15 37 ProSitePatterns PS00552 MerR-type HTH domain signature.
15 37 InterPro IPR000551 MerR-type HTH domain
13 49 Pfam PF00376 MerR family regulatory protein
13 49 InterPro IPR000551 MerR-type HTH domain
11 79 ProSiteProfiles PS50937 MerR-type HTH domain profile.
11 79 InterPro IPR000551 MerR-type HTH domain
24 37 PRINTS PR00040 MerR bacterial regulatory protein HTH signature
24 37 InterPro IPR000551 MerR-type HTH domain
47 67 PRINTS PR00040 MerR bacterial regulatory protein HTH signature
47 67 InterPro IPR000551 MerR-type HTH domain
13 24 PRINTS PR00040 MerR bacterial regulatory protein HTH signature
13 24 InterPro IPR000551 MerR-type HTH domain
1 135 FunFam G3DSA:1.10.1660.10:FF:000002 Redox-sensitive transcriptional activator SoxR
10 117 PANTHER PTHR30204 REDOX-CYCLING DRUG-SENSING TRANSCRIPTIONAL ACTIVATOR SOXR
10 117 InterPro IPR047057 MerR transcriptional regulator
12 80 SMART SM00422 merrmega3
12 80 InterPro IPR000551 MerR-type HTH domain
55 119 Pfam PF09278 MerR, DNA binding
55 119 InterPro IPR015358 Transcription regulator MerR, DNA binding
11 149 CDD cd01110 HTH_SoxR
11 149 InterPro IPR010211 Redox-sensitive transcriptional activator SoxR
1 135 Gene3D G3DSA:1.10.1660.10 -
12 152 NCBIfam TIGR01950 redox-sensitive transcriptional activator SoxR
12 152 InterPro IPR010211 Redox-sensitive transcriptional activator SoxR

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_A0A0H3GL27
AlphaFold — — full sequence — Viewing
ColabFold KP13_00417
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
1 0.411
2 0.312
7 0.284
5 0.206

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.

2 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
DTT
2ZHG
P0ACS2 154.3 Da LogP -0.43 TPSA 40.5 ✓ Ro5 ✓ Clean C([C@@H]([C@H](CS)O)O)S
FES
2ZHG
P0ACS2 175.8 Da LogP 1.29 TPSA 0.0 ✓ Ro5 ✓ Clean S1[Fe]S[Fe]1

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.