Protein profile

KP13_04590

renal dipeptidase (rDP)-related protein

Genome: KpKP13

Gene: AHE44465.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GTU1
Amino acids 363
Annotations 2
Features 11
PDB binders 7
Druggability 0.315

Overview

Basic information about this protein and its source genome.

Accession
KP13_04590
Gene
AHE44465.1
Status
annotated
Amino acids
363
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
28.261
Human E-value
9.28e-08
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
Unknown
ColabFold pLDDT
93.39

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 0.315
Structure A0A0H3GTU1
Pocket Pocket 14
P2Rank 0.797
Structure A0A0H3GTU1
Pocket Pocket 1
ColabFold model
FPocket 0.568 · Pocket 4
P2Rank 0.815 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 25 / 4744 genomes with a hit
Normalized 0.005

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Gene Ontology (GO)

2
  • GO:0006508 The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
  • GO:0070573 Catalysis of the hydrolysis of a dipeptide by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.

Sequence Features

Domain/signature hits from InterPro and related databases.

11 records
Show feature table
Start End DB Term Name
27 356 CDD cd01301 rDP_like
27 356 InterPro IPR008257 Peptidase M19
22 363 Gene3D G3DSA:3.20.20.140 -
25 358 Pfam PF01244 Membrane dipeptidase (Peptidase family M19)
25 358 InterPro IPR008257 Peptidase M19
24 362 PANTHER PTHR10443 MICROSOMAL DIPEPTIDASE
24 362 InterPro IPR008257 Peptidase M19
23 361 SUPERFAMILY SSF51556 Metallo-dependent hydrolases
23 361 InterPro IPR032466 Metal-dependent hydrolase
12 363 ProSiteProfiles PS51365 Renal dipeptidase family profile.
12 363 InterPro IPR008257 Peptidase M19

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...

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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_A0A0H3GTU1
AlphaFold full sequence Viewing
ColabFold KP13_04590
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
14 0.315

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 14.09 0.711
2 6.59 0.334
3 1.47 0.02

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.

157 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
B88 Q93J45 239.2 Da LogP -0.26 TPSA 137.9 ✓ Ro5 ✓ Clean C[C@H](N)[P@](=O)(C[C@@H](CC(=O)O)C(=O)O)O
L3A Q93J45 237.2 Da LogP 1.31 TPSA 100.6 ✓ Ro5 ✓ Clean C[C@@H](CP(=O)([C@H](CC(C)C)N)O)C(=O)O
LDE Q93J45 295.3 Da LogP 1.15 TPSA 137.9 ✓ Ro5 ✓ Clean CC(C)C[C@H](N)P(=O)(C[C@H](CCC(=O)O)C(=O)O)O
LY0 Q3IZQ3 195.2 Da LogP 0.28 TPSA 100.6 ✓ Ro5 ✓ Clean C[C@@H](C[P@](=O)([C@H](C)N)O)C(=O)O
P4D Q93J45 331.3 Da LogP 0.67 TPSA 158.2 ✓ Ro5 ✓ Clean c1cc(ccc1C[C@H](N)P(=O)(C[C@H](CC(=O)O)C(=O)O)O…
P5D Q93J45 315.3 Da LogP 0.96 TPSA 137.9 ✓ Ro5 ✓ Clean c1ccc(cc1)C[C@H](N)P(=O)(C[C@H](CC(=O)O)C(=O)O)O
P8D Q93J45 239.2 Da LogP -0.26 TPSA 137.9 ✓ Ro5 ✓ Clean C[C@H](N)[P@@](=O)(C[C@H](CC(=O)O)C(=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.