GapMind for catabolism of small carbon sources


Clusters of Characterized Proteins

Clustering the characterized proteins for nupB (deoxyinosine ABC transporter, permease component 1) in 2'-deoxyinosine catabolism

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Definition of nupB

Fetched 2 sequences

Running BLASTp

Found similarities, at above 30% identity and 75% coverage, for 2 of these sequences

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

Cluster 1 358-364 amino acids (heteromeric)

The first sequence in each cluster is the seed.

TC 3.A.1.2.17 / A2RKA6 Purine/cytidine ABC transporter permease protein, component of General nucleoside uptake porter, NupABC/BmpA (transports all common nucleosides as well as 5-fluorocytidine, inosine, deoxyuridine and xanthosine) (Martinussen et al., 2010) (Most similar to 3.A.1.2.12). NupA is 506aas with two ABC (C) domains. NupB has 8 predicted TMSs, NupC has 9 or 10 predicted TMSs in a 4 + 1 (or 2) + 4 arrangement from Lactococcus lactis subsp. cremoris (strain MG1363)
PFams: BPD_transp_2
Heteromeric, 364 amino acids: PaperBLAST, CDD, Compare to cluster

TC 3.A.1.2.12 / Q8DU38 RnsC, component of The (deoxy)ribonucleoside permease; probably takes up all deoxy- and ribonucleosides (cytidine, uridine, adenosine and toxic analogues, fluorocytidine and fluorouridine tested), but not ribose or nucleobases from Streptococcus mutans
PFams: BPD_transp_2
Heteromeric, 358 amino acids: PaperBLAST, CDD, Compare to cluster