Protein profile

KP13_06737

conjugal transfer TrbB-like protein

Genome: KpKP13

Gene: AHE41841.1 trbB Structure source: AlphaFold + ColabFold UniProt A0A1C8Y8I6
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Amino acids 343
Annotations 4
Features 11
PDB binders 3
Druggability 0.653

Overview

Basic information about this protein and its source genome.

Accession
KP13_06737
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE41841.1 trbB
Status
annotated
Amino acids
343
Structure source
AlphaFold + ColabFold
GO
GO:0044097 The controlled release of proteins or DNA by a cell, via the type IV secretion system. GO:0043684 A complex of proteins related to those involved in bacterial DNA conjugative transfer, that permits the transfer of DNA or proteins into the extracellular milieu or directly into host cells. In general the type IV complex forms a multisubunit cell-envelope-spanning structure composed of a secretion channel and often a pilus or other surface filament or protein(s). GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator. GO:0016887 Catalysis of the reaction: ATP + H2O = ADP + H+ phosphate. ATP hydrolysis is used in some reactions as an energy source, for example to catalyze a reaction or drive transport against a concentration gradient.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
Cytoplasmic
ColabFold pLDDT
91.28

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 0.653
Structure A0A1C8Y8I6
Pocket Pocket 2
P2Rank 0.189
Structure A0A1C8Y8I6
Pocket Pocket 1
ColabFold model
FPocket 0.477 · Pocket 3
P2Rank 0.157 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 2 / 4744 genomes with a hit
Normalized 0

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:0044097 The controlled release of proteins or DNA by a cell, via the type IV secretion system.
  • GO:0043684 A complex of proteins related to those involved in bacterial DNA conjugative transfer, that permits the transfer of DNA or proteins into the extracellular milieu or directly into host cells. In general the type IV complex forms a multisubunit cell-envelope-spanning structure composed of a secretion channel and often a pilus or other surface filament or protein(s).
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0016887 Catalysis of the reaction: ATP + H2O = ADP + H+ phosphate. ATP hydrolysis is used in some reactions as an energy source, for example to catalyze a reaction or drive transport against a concentration gradient.

Sequence Features

Domain/signature hits from InterPro and related databases.

11 records
Show feature table
Start End DB Term Name
119 338 Gene3D G3DSA:3.40.50.300 -
119 338 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
152 329 CDD cd01130 VirB11-like_ATPase
12 111 Gene3D G3DSA:3.30.450.90 -
20 311 PANTHER PTHR30486 TWITCHING MOTILITY PROTEIN PILT
22 321 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
22 321 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
25 283 Pfam PF00437 Type II/IV secretion system protein
25 283 InterPro IPR001482 Type II/IV secretion system domain
25 329 NCBIfam TIGR02788 P-type DNA transfer ATPase VirB11
25 329 InterPro IPR014155 Type IV secretion system protein VirB11

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_A0A1C8Y8I6
AlphaFold — — full sequence — Viewing
ColabFold KP13_06737
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
2 0.653

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 1.57 0.024
2 1.23 0.012

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.

53 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
AGS
1NLY
Q7BK04 523.2 Da LogP -1.51 TPSA 262.1 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ANP
2OAP
O29598 506.2 Da LogP -2.06 TPSA 281.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
DN7
6BGE
Q6VRM0 215.2 Da LogP 2.57 TPSA 59.4 ✓ Ro5 ✓ Clean c1ccnc(c1)Oc2ccc(cc2)C(=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.