GapMind for catabolism of small carbon sources

 

Clusters of Characterized Proteins

Clustering the characterized proteins for braE (L-alanine/L-serine/L-threonine ABC transporter, permease component 2 (BraE/NatC)) in L-threonine catabolism

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Definition of braE

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. Another 1 sequences are not clustered. Download as table or as draft rules or view by organism

Cluster 1 377-417 amino acids (heteromeric)

The first sequence in each cluster is the seed.

TC 3.A.1.4.8 / P21628 High-affinity branched-chain amino acid transport system permease protein BraE, component of Branched chain amino acid uptake transporter. Transports alanine from Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
PFams: DUF3382, BPD_transp_2
Heteromeric, 417 amino acids: PaperBLAST, CDD, Compare to cluster

TC 3.A.1.4.6 / Q8YY08 NatC, component of The neutral amino acid permease, N-1 (transports pro, phe, leu, gly, ala, ser, gln and his, but gln and his are not transported via NatB)
PFams: BPD_transp_2
Heteromeric, 377 amino acids: PaperBLAST, CDD, Compare to cluster

Singletons (1/1 heteromeric)

TC 3.A.1.4.2 / P74455 NatC aka SLL0146, component of Leucine/proline/alanine/serine/glycine (and possibly histidine) porter, NatABCDE
PFams: BPD_transp_2
Heteromeric, 372 amino acids: PaperBLAST, CDD
(similar to TCDB::Q8YY08 from Cluster 1, but similarity to seed sequence is below thresholds)