Protein profile

KP13_00670

Aerobic glycerol-3-phosphate dehydrogenase

Genome: KpKP13

Gene: glpD AHE42289.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GYH6
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Amino acids 502
Annotations 7
Features 31
PDB binders 0
Druggability 0.565

Overview

Basic information about this protein and its source genome.

Accession
KP13_00670
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
glpD AHE42289.1
Status
annotated
Amino acids
502
Structure source
AlphaFold + ColabFold
EC
1.1.5.3
GO
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. GO:0006072 The chemical reactions and pathways involving glycerol-3-phosphate, a phosphoric monoester of glycerol. GO:0004368 Catalysis of the reaction: sn-glycerol 3-phosphate + a quinone = glycerone phosphate + a quinol. 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:0006071 The chemical reactions and pathways involving glycerol, 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids. GO:0046168 The chemical reactions and pathways resulting in the breakdown of glycerol-3-phosphate, a phosphoric monoester of glycerol.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
30.599
Human E-value
9.55e-33
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
58.936
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
95.97

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 0.565
Structure A0A0H3GYH6
Pocket Pocket 14
P2Rank 0.99
Structure A0A0H3GYH6
Pocket Pocket 1
ColabFold model
FPocket 0.957 · Pocket 1
P2Rank 0.991 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 147 / 4744 genomes with a hit
Normalized 0.031

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 6 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

6
  • 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.
  • GO:0006072 The chemical reactions and pathways involving glycerol-3-phosphate, a phosphoric monoester of glycerol.
  • GO:0004368 Catalysis of the reaction: sn-glycerol 3-phosphate + a quinone = glycerone phosphate + a quinol.
  • 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:0006071 The chemical reactions and pathways involving glycerol, 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids.
  • GO:0046168 The chemical reactions and pathways resulting in the breakdown of glycerol-3-phosphate, a phosphoric monoester of glycerol.

Sequence Features

Domain/signature hits from InterPro and related databases.

31 records
Show feature table
Start End DB Term Name
9 26 ProSitePatterns PS00977 FAD-dependent glycerol-3-phosphate dehydrogenase signature 1.
9 26 InterPro IPR000447 FAD-dependent glycerol-3-phosphate dehydrogenase
391 461 FunFam G3DSA:1.10.8.870:FF:000002 Glycerol-3-phosphate dehydrogenase
462 502 Gene3D G3DSA:6.10.250.1890 -
352 362 ProSitePatterns PS00978 FAD-dependent glycerol-3-phosphate dehydrogenase signature 2.
381 493 Pfam PF16901 C-terminal domain of alpha-glycerophosphate oxidase
381 493 InterPro IPR031656 Alpha-glycerophosphate oxidase, C-terminal
391 461 Gene3D G3DSA:1.10.8.870 -
391 461 InterPro IPR038299 Alpha-glycerophosphate oxidase, C-terminal domain superfamily
99 320 Gene3D G3DSA:3.30.9.10 -
226 319 SUPERFAMILY SSF54373 FAD-linked reductases, C-terminal domain
5 388 Gene3D G3DSA:3.50.50.60 -
5 388 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
1 375 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain
1 375 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
4 16 PRINTS PR01001 FAD-dependent glycerol-3-phosphate dehydrogenase family signature
4 16 InterPro IPR000447 FAD-dependent glycerol-3-phosphate dehydrogenase
17 27 PRINTS PR01001 FAD-dependent glycerol-3-phosphate dehydrogenase family signature
17 27 InterPro IPR000447 FAD-dependent glycerol-3-phosphate dehydrogenase
347 359 PRINTS PR01001 FAD-dependent glycerol-3-phosphate dehydrogenase family signature
347 359 InterPro IPR000447 FAD-dependent glycerol-3-phosphate dehydrogenase
78 90 PRINTS PR01001 FAD-dependent glycerol-3-phosphate dehydrogenase family signature
78 90 InterPro IPR000447 FAD-dependent glycerol-3-phosphate dehydrogenase
33 45 PRINTS PR01001 FAD-dependent glycerol-3-phosphate dehydrogenase family signature
33 45 InterPro IPR000447 FAD-dependent glycerol-3-phosphate dehydrogenase
313 319 PRINTS PR01001 FAD-dependent glycerol-3-phosphate dehydrogenase family signature
313 319 InterPro IPR000447 FAD-dependent glycerol-3-phosphate dehydrogenase
3 489 PANTHER PTHR11985 GLYCEROL-3-PHOSPHATE DEHYDROGENASE
3 489 InterPro IPR000447 FAD-dependent glycerol-3-phosphate dehydrogenase
5 323 Pfam PF01266 FAD dependent oxidoreductase
5 323 InterPro IPR006076 FAD dependent oxidoreductase

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_A0A0H3GYH6
AlphaFold — — full sequence — Viewing
ColabFold KP13_00670
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
14 0.565
1 0.446

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 24.2 0.896
2 22.38 0.88
3 17.44 0.802
4 3.47 0.126
5 1.51 0.022