Clusters of Characterized Proteins

Clustering the characterized proteins for LRA6 (2,4-diketo-3-deoxyrhamnonate hydrolase) in L-rhamnose catabolism

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Definition of LRA6

• Curated sequence MONOMER-16233: L-2-keto-3-deoxyrhamnonate 4-dehydrogenase subunit (EC 1.1.1.401)
• Curated proteins matching L-2,4-diketo-3-deoxyrhamnonate hydrolase
• Curated proteins matching 2,4-diketo-3-deoxy-L-rhamnonate hydrolase
• Curated proteins or TIGRFams with EC 3.7.1.26
• Ignore hits to Q39BA7 when looking for 'other' hits (Ureidoglycolate lyase; UGL; Ureidoglycolase; Ureidoglycolatase; Ureidoglycolate hydrolase; EC 4.3.2.3)
• Comment: EC 3.7.1.26 has been assigned but not linked to the characterized protein, which is EAT09363.1 or link (PMID:19187228) -- but MONOMER-16233 is misannotated as a dehydrogenase. And, ignore Q39BA7, which is very similar to LRA6 from Burkholderia phytofirmans PsJN but is reported to be a ureidoglycolate lyase (PMID:14506266).

Fetched 3 sequences

Running BLASTp

Found similarities, at above 30% identity and 75% coverage, for 3 of these sequences

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

Cluster 1 281-285 amino acids (not heteromeric)

Q1NEI7 L-2-keto-3-deoxyrhamnonate 4-dehydrogenase subunit (EC 1.1.1.401) from Sphingomonas sp. (strain SKA58)
PFams: FAA_hydrolase
285 amino acids: PaperBLAST, CDD, Compare to cluster

BPHYT_RS34210 2,4-diketo-3-deoxy-L-rhamnonate hydrolase (EC 3.7.1.-) from Burkholderia phytofirmans PsJN
PFams: FAA_hydrolase
282 amino acids: PaperBLAST, CDD, Compare to cluster

SM_b21112 L-2,4-diketo-3-deoxyrhamnonate hydrolase; 2,4-dioxopentanoate hydrolase from Sinorhizobium meliloti 1021
PFams: FAA_hydrolase
281 amino acids: PaperBLAST, CDD, Compare to cluster