Protein profile

KP13_17708

putative transpeptidase

Genome: KpKP13

Gene: ANJ86625.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GNQ3
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Amino acids 246
Annotations 5
Features 15
PDB binders 0
Druggability 0.318

Overview

Basic information about this protein and its source genome.

Accession
KP13_17708
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
ANJ86625.1
Status
annotated
Amino acids
246
Structure source
AlphaFold + ColabFold
GO
GO:0016740 Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2. GO:0004180 Catalysis of the hydrolysis of a single C-terminal amino acid residue from a polypeptide chain. GO:0071555 A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. GO:0009252 The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls and consisting of long glycan strands of alternating residues of beta-(1,4) linked N-acetylglucosamine and N-acetylmuramic acid, cross-linked by short peptides. GO:0008360 Any process that modulates the surface configuration of a cell.

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
Unknown
ColabFold pLDDT
86.06

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 0.318
Structure A0A0H3GNQ3
Pocket Pocket 7
P2Rank 0.5
Structure A0A0H3GNQ3
Pocket Pocket 1
ColabFold model
FPocket 0.623 · Pocket 4
P2Rank 0.205 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 110 / 4744 genomes with a hit
Normalized 0.023

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Gene Ontology (GO)

5
  • GO:0016740 Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
  • GO:0004180 Catalysis of the hydrolysis of a single C-terminal amino acid residue from a polypeptide chain.
  • GO:0071555 A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
  • GO:0009252 The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls and consisting of long glycan strands of alternating residues of beta-(1,4) linked N-acetylglucosamine and N-acetylmuramic acid, cross-linked by short peptides.
  • GO:0008360 Any process that modulates the surface configuration of a cell.

Sequence Features

Domain/signature hits from InterPro and related databases.

15 records
Show feature table
Start End DB Term Name
1 3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
45 158 CDD cd16913 YkuD_like
45 158 InterPro IPR005490 L,D-transpeptidase catalytic domain
16 19 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
1 19 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM
1 19 Phobius SIGNAL_PEPTIDE Signal peptide region
1 246 NCBIfam NF040599 peptidoglycan meso-diaminopimelic acid protein amidase
4 243 PANTHER PTHR36699 LD-TRANSPEPTIDASE
4 15 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
1 19 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM
42 159 SUPERFAMILY SSF141523 L,D-transpeptidase catalytic domain-like
42 159 InterPro IPR038063 L,D-transpeptidase catalytic domain-like
20 246 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
44 159 Pfam PF03734 L,D-transpeptidase catalytic domain
44 159 InterPro IPR005490 L,D-transpeptidase catalytic domain

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_A0A0H3GNQ3
AlphaFold — — full sequence — Viewing
ColabFold KP13_17708
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
7 0.318
9 0.206

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 6.48 0.327
2 2.26 0.056