Protein profile

KP13_00938

Nucleoid-associated protein ndpA

Genome: KpKP13

Gene: ndpA AHE43535.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GVK3
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Amino acids 335
Annotations 5
Features 6
PDB binders 0
Druggability 0.237

Overview

Basic information about this protein and its source genome.

Accession
KP13_00938
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
ndpA AHE43535.1
Status
annotated
Amino acids
335
Structure source
AlphaFold + ColabFold
GO
GO:0009295 The region of a virus, bacterial cell, mitochondrion or chloroplast to which the nucleic acid is confined. GO:0043590 The region of a bacterial cell to which the DNA is confined. GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. GO:0003690 Binding to double-stranded DNA. GO:0003727 Binding to single-stranded RNA.

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
92.94

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 0.237
Structure A0A0H3GVK3
Pocket Pocket 2
P2Rank 0.148
Structure A0A0H3GVK3
Pocket Pocket 1
ColabFold model
FPocket 0.33 · Pocket 1
P2Rank 0.16 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 124 / 4744 genomes with a hit
Normalized 0.026

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:0009295 The region of a virus, bacterial cell, mitochondrion or chloroplast to which the nucleic acid is confined.
  • GO:0043590 The region of a bacterial cell to which the DNA is confined.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0003690 Binding to double-stranded DNA.
  • GO:0003727 Binding to single-stranded RNA.

Sequence Features

Domain/signature hits from InterPro and related databases.

6 records
Show feature table
Start End DB Term Name
1 331 PANTHER PTHR38772 -
1 331 InterPro IPR007358 Nucleoid-associated protein NdpA
3 330 Hamap MF_00730 Nucleoid-associated protein YejK [yejK].
3 330 InterPro IPR007358 Nucleoid-associated protein NdpA
10 324 Pfam PF04245 37-kD nucleoid-associated bacterial protein
10 324 InterPro IPR007358 Nucleoid-associated protein NdpA

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_A0A0H3GVK3
AlphaFold — — full sequence — Viewing
ColabFold KP13_00938
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 0.237

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 2.71 0.081
2 1.06 0.006