Protein profile

KP13_03299

KDP operon transcriptional regulatory protein kdpE

Genome: KpKP13

Gene: kdpE AHE45678.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GU31
Export view
Amino acids 225
Annotations 9
Features 25
PDB binders 2
Druggability 0.556

Overview

Basic information about this protein and its source genome.

Accession
KP13_03299
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
kdpE AHE45678.1
Status
annotated
Amino acids
225
Structure source
AlphaFold + ColabFold
GO
GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription. GO:0000160 A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:0032993 A macromolecular complex containing both protein and DNA molecules. GO:0000987 Binding to a specific upstream regulatory DNA sequence (transcription factor recognition sequence or binding site, located in cis relative to the transcription start site (i.e., on the same strand of DNA) of a gene transcribed by some RNA polymerase. Cis-regulatory sites are often referred to as a sequence motifs, enhancers, or silencers.

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 (%)
84.375
DEG E-value
1.05e-139
Localization
Cytoplasmic
ColabFold pLDDT
90.41

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 0.556
Structure A0A0H3GU31
Pocket Pocket 3
P2Rank 0.033
Structure A0A0H3GU31
Pocket Pocket 1
ColabFold model
FPocket 0.376 · Pocket 5
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 154 / 4744 genomes with a hit
Normalized 0.032

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

9 GO

Gene Ontology (GO)

9
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:0000160 A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
  • GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0032993 A macromolecular complex containing both protein and DNA molecules.
  • GO:0000987 Binding to a specific upstream regulatory DNA sequence (transcription factor recognition sequence or binding site, located in cis relative to the transcription start site (i.e., on the same strand of DNA) of a gene transcribed by some RNA polymerase. Cis-regulatory sites are often referred to as a sequence motifs, enhancers, or silencers.
  • GO:0042802 Binding to an identical protein or proteins.
  • GO:0000156 Responds to a phosphorelay sensor to initiate a change in cell state or activity. The activity of the response regulator is regulated by transfer of a phosphate from a histidine residue in the sensor, to an aspartate residue in the response regulator. Many but not all response regulators act as transcriptional regulators to elicit a response.
  • GO:0045893 Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.

Sequence Features

Domain/signature hits from InterPro and related databases.

25 records
Show feature table
Start End DB Term Name
126 225 ProSiteProfiles PS51755 OmpR/PhoB-type DNA-binding domain profile.
126 225 InterPro IPR001867 OmpR/PhoB-type DNA-binding domain
147 223 SMART SM00862 Trans_reg_C_3
147 223 InterPro IPR001867 OmpR/PhoB-type DNA-binding domain
1 80 FunFam G3DSA:3.40.50.2300:FF:000021 Two-component system response regulator KdpE
134 223 CDD cd00383 trans_reg_C
134 223 InterPro IPR001867 OmpR/PhoB-type DNA-binding domain
81 117 Gene3D G3DSA:6.10.250.690 -
4 102 CDD cd17620 REC_OmpR_KdpE-like
4 112 Pfam PF00072 Response regulator receiver domain
4 112 InterPro IPR001789 Signal transduction response regulator, receiver domain
1 223 PANTHER PTHR48111 REGULATOR OF RPOS
1 223 InterPro IPR039420 Transcriptional regulatory protein WalR-like
2 112 SMART SM00448 REC_2
2 112 InterPro IPR001789 Signal transduction response regulator, receiver domain
124 224 FunFam G3DSA:1.10.10.10:FF:000210 Winged-helix transcriptional response regulator KdpE
1 175 SUPERFAMILY SSF52172 CheY-like
1 175 InterPro IPR011006 CheY-like superfamily
148 223 Pfam PF00486 Transcriptional regulatory protein, C terminal
148 223 InterPro IPR001867 OmpR/PhoB-type DNA-binding domain
3 116 ProSiteProfiles PS50110 Response regulatory domain profile.
3 116 InterPro IPR001789 Signal transduction response regulator, receiver domain
118 224 Gene3D G3DSA:1.10.10.10 -
118 224 InterPro IPR036388 Winged helix-like DNA-binding domain superfamily
2 80 Gene3D G3DSA:3.40.50.2300 -

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 + 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_A0A0H3GU31
AlphaFold — — full sequence — Viewing
ColabFold KP13_03299
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
3 0.556
1 0.091
2 0.0
10 0.0

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 1.93 0.033

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
BEF
6EB7
A0A0H2UQ68 66.0 Da LogP 0.88 TPSA 0.0 ✓ Ro5 ✓ Clean [Be-](F)(F)F
PHS
1NXP
A0A0H2UQ68 82.0 Da LogP -0.64 TPSA 57.5 ✓ Ro5 ✓ Clean OP(=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.