Protein profile

VK055_4866

glycerol-3-phosphate dehydrogenase, anaerobic, Csubunit

Genome: KpATCC43816

Gene: glpC AIK83393.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GSZ6
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Amino acids 392
Annotations 8
Features 19
PDB binders 0
Druggability 0.995

Overview

Basic information about this protein and its source genome.

Accession
VK055_4866
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
glpC AIK83393.1
Status
annotated
Amino acids
392
Structure source
AlphaFold + ColabFold
GO
GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it. GO:0051536 Binding to an iron-sulfur cluster, a combination of iron and sulfur atoms. GO:0009061 The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which uses compounds other than oxygen (e.g. nitrate, sulfate) as the terminal electron acceptor. GO:0009331 An enzyme complex that catalyzes the oxidation of sn-glycerol 3-phosphate to dihydroxyacetone phosphate, with concurrent reduction of flavin adenine dinucleotide (FAD) to FADH2. In E. coli, the complex is either a GlpA-GlpB-GlpC heterotrimer that functions in anaerobic conditions, or a GlpD homodimer that functions in aerobic conditions. GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins. GO:0051539 Binding to a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.

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 (%)
24.065
Localization
CytoplasmicMembrane
ColabFold pLDDT
95.71

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 0.995
Structure A0A0H3GSZ6
Pocket Pocket 6
P2Rank 0.974
Structure A0A0H3GSZ6
Pocket Pocket 1
ColabFold model
FPocket 0.997 · Pocket 8
P2Rank 0.971 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 256 / 4744 genomes with a hit
Normalized 0.054

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

8 GO

Gene Ontology (GO)

8
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0051536 Binding to an iron-sulfur cluster, a combination of iron and sulfur atoms.
  • GO:0009061 The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which uses compounds other than oxygen (e.g. nitrate, sulfate) as the terminal electron acceptor.
  • GO:0009331 An enzyme complex that catalyzes the oxidation of sn-glycerol 3-phosphate to dihydroxyacetone phosphate, with concurrent reduction of flavin adenine dinucleotide (FAD) to FADH2. In E. coli, the complex is either a GlpA-GlpB-GlpC heterotrimer that functions in anaerobic conditions, or a GlpD homodimer that functions in aerobic conditions.
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • GO:0051539 Binding to a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
  • GO:0046872 Binding to a metal ion.
  • GO:0016491 Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.

Sequence Features

Domain/signature hits from InterPro and related databases.

19 records
Show feature table
Start End DB Term Name
6 69 InterPro IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain
56 67 ProSitePatterns PS00198 4Fe-4S ferredoxin-type iron-sulfur binding region signature.
56 67 InterPro IPR017900 4Fe-4S ferredoxin, iron-sulphur binding, conserved site
45 70 ProSiteProfiles PS51379 4Fe-4S ferredoxin-type iron-sulfur binding domain profile.
45 70 InterPro IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain
6 83 SUPERFAMILY SSF46548 alpha-helical ferredoxin
289 372 Pfam PF02754 Cysteine-rich domain
289 372 InterPro IPR004017 Cysteine-rich domain
163 245 Pfam PF02754 Cysteine-rich domain
163 245 InterPro IPR004017 Cysteine-rich domain
6 69 Pfam PF13183 4Fe-4S dicluster domain
3 89 Gene3D G3DSA:1.10.1060.10 -
3 89 InterPro IPR009051 Alpha-helical ferredoxin
1 29 ProSiteProfiles PS51379 4Fe-4S ferredoxin-type iron-sulfur binding domain profile.
1 29 InterPro IPR017896 4Fe-4S ferredoxin-type, iron-sulphur binding domain
3 89 FunFam G3DSA:1.10.1060.10:FF:000008 Glycerol-3-phosphate dehydrogenase, anaerobic, C subunit
3 391 PANTHER PTHR32479 GLYCOLATE OXIDASE IRON-SULFUR SUBUNIT
3 391 NCBIfam TIGR03379 anaerobic glycerol-3-phosphate dehydrogenase subunit GlpC
3 391 InterPro IPR017753 Glycerol-3-phosphate dehydrogenase, GlpC subunit

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_A0A0H3GSZ6
AlphaFold — — full sequence — Viewing
ColabFold VK055_4866
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
6 0.995

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 36.03 0.954
2 3.77 0.145
3 3.52 0.129
4 3.43 0.124
5 1.67 0.028