Protein profile

VK055_2973

phosphonate metabolism protein PhnM

Genome: KpATCC43816

Gene: phnM AIK81558.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GQC2
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Amino acids 378
Annotations 2
Features 17
PDB binders 0
Druggability 0.34

Overview

Basic information about this protein and its source genome.

Accession
VK055_2973
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
phnM AIK81558.1
Status
annotated
Amino acids
378
Structure source
AlphaFold + ColabFold
GO
GO:0016810 Catalysis of the hydrolysis of any carbon-nitrogen bond, C-N, with the exception of peptide bonds. GO:0019700 The chemical reactions and pathways resulting in the breakdown of phosphonates, any organic compound containing one or more C-PO(OH)2 or C-PO(OR)2 (with R=alkyl, aryl) groups. Catabolism of phosphonic acid itself, an inorganic compound without the biochemically relevant C-P bond, is not included.

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
94.73

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 0.34
Structure A0A0H3GQC2
Pocket Pocket 22
P2Rank 0.895
Structure A0A0H3GQC2
Pocket Pocket 1
ColabFold model
FPocket 0.297 · Pocket 4
P2Rank 0.905 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 72 / 4744 genomes with a hit
Normalized 0.015

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:0016810 Catalysis of the hydrolysis of any carbon-nitrogen bond, C-N, with the exception of peptide bonds.
  • GO:0019700 The chemical reactions and pathways resulting in the breakdown of phosphonates, any organic compound containing one or more C-PO(OH)2 or C-PO(OR)2 (with R=alkyl, aryl) groups. Catabolism of phosphonic acid itself, an inorganic compound without the biochemically relevant C-P bond, is not included.

Sequence Features

Domain/signature hits from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
1 377 SUPERFAMILY SSF51338 Composite domain of metallo-dependent hydrolases
1 377 InterPro IPR011059 Metal-dependent hydrolase, composite domain superfamily
1 269 Gene3D G3DSA:3.20.20.140 -
108 128 Coils Coil Coil
48 374 CDD cd01306 PhnM
48 374 InterPro IPR012696 Phosphonate metabolism PhnM
2 378 NCBIfam TIGR02318 phosphonate metabolism protein PhnM
2 378 InterPro IPR012696 Phosphonate metabolism PhnM
50 345 SUPERFAMILY SSF51556 Metallo-dependent hydrolases
50 345 InterPro IPR032466 Metal-dependent hydrolase
306 378 Gene3D G3DSA:2.30.40.10 Urease, subunit C, domain 1
306 378 InterPro IPR011059 Metal-dependent hydrolase, composite domain superfamily
1 378 PIRSF PIRSF038971 PhnM
1 378 InterPro IPR012696 Phosphonate metabolism PhnM
2 377 PANTHER PTHR43135 ALPHA-D-RIBOSE 1-METHYLPHOSPHONATE 5-TRIPHOSPHATE DIPHOSPHATASE
215 378 Pfam PF07969 Amidohydrolase family
215 378 InterPro IPR013108 Amidohydrolase 3

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_A0A0H3GQC2
AlphaFold — — full sequence — Viewing
ColabFold VK055_2973
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
22 0.34
4 0.012
1 0.002
5 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 29.31 0.895
2 2.95 0.076
3 1.2 0.009