Protein profile

VK055_5108

PIN domain protein

Genome: KpATCC43816

Gene: AIK83634.1 Structure source: AlphaFold + ColabFold UniProt A4GZE5
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Amino acids 138
Annotations 5
Features 9
PDB binders 0
Druggability 0.366

Overview

Basic information about this protein and its source genome.

Accession
VK055_5108
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK83634.1
Status
annotated
Amino acids
138
Structure source
AlphaFold + ColabFold
EC
3.1.-.-
GO
GO:0004540 Catalysis of the cleavage of phosphodiester bonds in chains of RNA. GO:0016787 Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. GO:0000287 Binding to a magnesium (Mg) ion. GO:0090729 Interacting selectively with one or more biological molecules in another (target) organism, initiating pathogenesis (leading to an abnormal, generally detrimental state) in the target organism. The activity should refer to an evolved function of the active gene product, i.e. one that was selected for. Examples include the activity of botulinum toxin, and snake venom.

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
94.6

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 0.366
Structure A4GZE5
Pocket Pocket 1
P2Rank 0.078
Structure A4GZE5
Pocket Pocket 1
ColabFold model
FPocket 0.593 · Pocket 6
P2Rank 0.132 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 32 / 4744 genomes with a hit
Normalized 0.007

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 4 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

4
  • GO:0004540 Catalysis of the cleavage of phosphodiester bonds in chains of RNA.
  • GO:0016787 Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
  • GO:0000287 Binding to a magnesium (Mg) ion.
  • GO:0090729 Interacting selectively with one or more biological molecules in another (target) organism, initiating pathogenesis (leading to an abnormal, generally detrimental state) in the target organism. The activity should refer to an evolved function of the active gene product, i.e. one that was selected for. Examples include the activity of botulinum toxin, and snake venom.

Sequence Features

Domain/signature hits from InterPro and related databases.

9 records
Show feature table
Start End DB Term Name
1 137 Gene3D G3DSA:3.40.50.1010 -
6 129 Pfam PF01850 PIN domain
6 129 InterPro IPR002716 PIN domain
1 137 PANTHER PTHR33653 RIBONUCLEASE VAPC2
2 136 SUPERFAMILY SSF88723 PIN domain-like
2 136 InterPro IPR029060 PIN-like domain superfamily
6 135 CDD cd09881 PIN_VapC4-5_FitB-like
5 135 Hamap MF_00265 tRNA(fMet)-specific endonuclease VapC [vapC].
5 135 InterPro IPR022907 VapC family

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_A4GZE5
AlphaFold — — full sequence — Viewing
ColabFold VK055_5108
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
1 0.366
7 0.25

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 1.11 0.008