Protein profile

KP13_00410

putative spermidine/putrescine-binding periplasmic

Genome: KpKP13

Gene: AHE46852.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GGY2
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Amino acids 379
Annotations 1
Features 12
PDB binders 0
Druggability 0.72

Overview

Basic information about this protein and its source genome.

Accession
KP13_00410
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
AHE46852.1
Status
annotated
Amino acids
379
Structure source
AlphaFold + ColabFold
GO
GO:0030288 The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.

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
Periplasmic
ColabFold pLDDT
93.05

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 0.72
Structure A0A0H3GGY2
Pocket Pocket 9
P2Rank 0.724
Structure A0A0H3GGY2
Pocket Pocket 1
ColabFold model
FPocket 0.798 · Pocket 1
P2Rank 0.704 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 11 / 4744 genomes with a hit
Normalized 0.002

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 GO

Gene Ontology (GO)

1
  • GO:0030288 The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.

Sequence Features

Domain/signature hits from InterPro and related databases.

12 records
Show feature table
Start End DB Term Name
1 21 Phobius SIGNAL_PEPTIDE Signal peptide region
1 6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
18 379 Gene3D G3DSA:3.40.190.10 -
1 21 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM
25 369 SUPERFAMILY SSF53850 Periplasmic binding protein-like II
1 21 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM
22 379 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
7 17 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
18 21 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
46 320 Pfam PF13416 Bacterial extracellular solute-binding protein
46 320 InterPro IPR006059 Bacterial extracellular solute-binding protein
28 328 PANTHER PTHR42779 PROTEIN YNJB

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_A0A0H3GGY2
AlphaFold — — full sequence — Viewing
ColabFold KP13_00410
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
9 0.72

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 11.25 0.602
2 4.18 0.17
3 2.88 0.091
4 1.5 0.021