Clusters of Characterized Proteins

Clustering the characterized proteins for gadh1 (gluconate 2-dehydrogenase flavoprotein subunit) in D-gluconate catabolism

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Definition of gadh1

• Curated sequence O34214: Gluconate 2-dehydrogenase flavoprotein; GA 2-DH dehydrogenase subunit; GADH dehydrogenase subunit; EC 1.1.99.3. gluconate 2-dehydrogenase dehydrogenase subunit (EC 1.1.99.3)
• Curated sequence MONOMER-12745: D-gluconate dehydrogenase dehydrogenase subunit (EC 1.1.99.3)
• Curated sequence A4PIB0: gluconate 2-dehydrogenase (EC 1.1.1.215)
• UniProt sequence G5EBD9: SubName: Full=Gluconate 2-dehydrogenase alpha chain {ECO:0000313|EMBL:AAW60992.1}; EC=1.1.99.3 {ECO:0000313|EMBL:AAW60992.1};
• Curated sequence C0LE03: gluconate 2-dehydrogenase (EC 1.1.1.215)
• Comment: gluconate 2-dehydrogenase has three subunits; known in Pseudomonas fluorescens and Pantoea/Pectobacterium cypripedii. There's also papers about two different enzymes in Gluconobacter. PMID:17720837 describes A4PIA9 = gndS = gadh3; A4PIB0 = gndL = gadh1; A4PIB1 = gndC = gadh2; BRENDA includes only A4PIB0. PMID:27392695 shows that overexpressing GOX1232 to GOX1230 (Q5FRK3 G5EBD9 Q5FRK5), paralogs of gndSLC, leads to increased production of 2-ketogluconate; BRENDA includes only Q5FRK5. Finally, C0LE03 is listed by BRENDA as a gluconate 2-dehydrogenase and is nearly identical to Q4KKM7 = link, so include that as well. Some papers also mention GOX0147 = 5FTU6 but that is the cytoplasmic 2-ketogluconate reductase.

Fetched 5 sequences

Running BLASTp

Found similarities, at above 30% identity and 75% coverage, for 5 of these sequences

Found 1 clusters of similar sequences. Download as table or as draft rules or view by organism

Cluster 1 592-615 amino acids (2/5 heteromeric)

A4PIB0 gluconate 2-dehydrogenase (EC 1.1.1.215) from Gluconobacter frateurii
PFams: GMC_oxred_N, GMC_oxred_C
593 amino acids: PaperBLAST, CDD, Compare to cluster

C0LE03 gluconate 2-dehydrogenase (EC 1.1.1.215) from Pseudomonas fluorescens
PFams: GMC_oxred_N, GMC_oxred_C
594 amino acids: PaperBLAST, CDD, Compare to cluster

O34214 gluconate 2-dehydrogenase dehydrogenase subunit (EC 1.1.99.3) from Pantoea cypripedii
GADH1_PANCY / O34214 Gluconate 2-dehydrogenase flavoprotein; GA 2-DH dehydrogenase subunit; GADH dehydrogenase subunit; EC 1.1.99.3 from Pantoea cypripedii (Pectobacterium cypripedii) (Erwinia cypripedii)
PFams: GMC_oxred_N, GMC_oxred_C
Heteromeric, 615 amino acids: PaperBLAST, CDD, Compare to cluster

G5EBD9 Gluconate 2-dehydrogenase alpha chain; EC=1.1.99.3
592 amino acids: PaperBLAST, CDD, Compare to cluster

Q4KKM7 D-gluconate dehydrogenase dehydrogenase subunit (EC 1.1.99.3) from Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)
PFams: GMC_oxred_N, GMC_oxred_C
Heteromeric, 594 amino acids: PaperBLAST, CDD, Compare to cluster