Clusters of Characterized Proteins

Clustering the characterized proteins for dctQ (succinate TRAP transporter, small permease component DctQ) in succinate catabolism

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Definition of dctQ

• Curated sequence O07837: C4-dicarboxylate TRAP transporter small permease protein DctQ. DctQ, component of Tripartite dicarboxylate:H+ symporter (substrates include: fumarate, D- and L-malate, succinate, succinamide, orotate, iticonate and mesaconate)
• Curated sequence Q9HU17: C4-dicarboxylate TRAP transporter small permease protein DctQ
• Curated sequence 5208944: dicarboxylate TRAP transporter (succinate, fumarate, L-malate, and alpha-ketoglutarate), small permease component
• Curated sequence GFF4196: C4-dicarboxylate transporter, DctQ subunit
• UniProt sequence Q9KQS0: RecName: Full=C4-dicarboxylate TRAP transporter small permease protein DctQ {ECO:0000305};
• Ignore hits to 6938089 when looking for 'other' hits (alpha-ketoglutarate TRAP transporter, small permease component)
• UniProt sequence I7EY26: SubName: Full=TRAP transporter, subunit DctQ {ECO:0000313|EMBL:AFO91752.1};
• Comment: TRAP transporter DctQMP. The P. aeruginosa system was not initially included (annotated as C4-dicarboxylate system; Q9HU16-8). Similarly for the system from Shewanella loihica PV-4 or P. stutzeri RCH2 (just one component annotated). The V. cholerae system is VC1927-VC1929 (PMID:22556361), but only the dctP (Q9KQR9) component is curated; Q9KQS0 is dctQ; Q9KQS1 is dctM. In Phaeobacter inhibens, the system is important for fumarate utilization: PGA1_c20670 = dctQ = I7EY26, PGA1_c20660 = dctM = I7DRS6, PGA1_c20680 = dctP = I7END8. Finally, ignore the system from S. amazonensis SB2B (Sama_2209:Sama_2211) as we have no fitness data for succinate from this organism (but it does utilize succinate).

Fetched 6 sequences

Running BLASTp

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

Found 2 clusters of similar sequences. Another 1 sequences are not clustered. Download as table or as draft rules or view by organism

Cluster 1 212-232 amino acids (1/3 heteromeric)

Q9KQS0 C4-dicarboxylate TRAP transporter small permease protein DctQ
232 amino acids: PaperBLAST, CDD, Compare to cluster

I7EY26 TRAP transporter, subunit DctQ
225 amino acids: PaperBLAST, CDD, Compare to cluster

Shew_1445 dicarboxylate TRAP transporter (succinate, fumarate, L-malate, and alpha-ketoglutarate), small permease component from Shewanella loihica PV-4
PFams: DctQ
Heteromeric, 212 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 2 208-210 amino acids (1/2 heteromeric)

DCTQ_PSEAE / Q9HU17 C4-dicarboxylate TRAP transporter small permease protein DctQ from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PFams: DctQ
210 amino acids: PaperBLAST, CDD, Compare to cluster

Psest_4269 C4-dicarboxylate transporter, DctQ subunit from Pseudomonas stutzeri RCH2
PFams: DctQ
Heteromeric, 208 amino acids: PaperBLAST, CDD, Compare to cluster

Singletons (1/1 heteromeric)

DCTQ_RHOCA / O07837 C4-dicarboxylate TRAP transporter small permease protein DctQ from Rhodobacter capsulatus (Rhodopseudomonas capsulata)
TC 2.A.56.1.1 / O07837 DctQ, component of Tripartite dicarboxylate:H+ symporter (substrates include: fumarate, D- and L-malate, succinate, succinamide, orotate, iticonate and mesaconate) from Rhodobacter capsulatus (Rhodopseudomonas capsulata)
PFams: DctQ
Heteromeric, 227 amino acids: PaperBLAST, CDD