Protein profile

VK055_4599

stress-induced alternate pyruvate formate-lyase subunit

Genome: KpATCC43816

Gene: yfiD AIK83133.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GW99
Export view
Amino acids 127
Annotations 3
Features 15
PDB binders 0
Druggability 0.079

Overview

Basic information about this protein and its source genome.

Accession
VK055_4599
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
yfiD AIK83133.1
Status
annotated
Amino acids
127
Structure source
AlphaFold + ColabFold
GO
GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic. GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:0008861 Catalysis of the reaction: acetyl-CoA + formate = CoA + pyruvate.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
91.339
DEG E-value
2.08e-85
Localization
Cytoplasmic
ColabFold pLDDT
88.94

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 0.079
Structure A0A0H3GW99
Pocket Pocket 2
P2Rank
Structure A0A0H3GW99
Pocket No pockets
ColabFold model
FPocket 0.303 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 216 / 4744 genomes with a hit
Normalized 0.046

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Gene Ontology (GO)

3
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0008861 Catalysis of the reaction: acetyl-CoA + formate = CoA + pyruvate.

Sequence Features

Domain/signature hits from InterPro and related databases.

15 records
Show feature table
Start End DB Term Name
64 126 Gene3D G3DSA:3.20.70.20 -
64 126 FunFam G3DSA:3.20.70.20:FF:000002 Autonomous glycyl radical cofactor
15 108 Pfam PF01228 Glycine radical
15 108 InterPro IPR001150 Glycine radical domain
2 127 PIRSF PIRSF000378 Gly_radicl_YfiD
2 127 InterPro IPR011140 Autonomous glycyl radical cofactor GrcA
46 125 SUPERFAMILY SSF51998 PFL-like glycyl radical enzymes
5 127 ProSiteProfiles PS51149 Glycine radical domain profile.
5 127 InterPro IPR001150 Glycine radical domain
2 127 NCBIfam TIGR04365 autonomous glycyl radical cofactor GrcA
97 105 ProSitePatterns PS00850 Glycine radical domain signature.
97 105 InterPro IPR019777 Formate C-acetyltransferase glycine radical, conserved site
67 126 PANTHER PTHR30191 FORMATE ACETYLTRANSFERASE
1 127 Hamap MF_00806 Autonomous glycyl radical cofactor [grcA].
1 127 InterPro IPR011140 Autonomous glycyl radical cofactor GrcA

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...

Legend High Medium Low

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_A0A0H3GW99
AlphaFold — — full sequence — Viewing
ColabFold VK055_4599
ColabFold — — full sequence — Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer