Clusters of Characterized Proteins

Clustering the characterized proteins for cycA (L-alanine symporter CycA) in L-alanine catabolism

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Definition of cycA

• Curated sequence P0AAE0: D-serine/D-alanine/glycine transporter. D-Serine/D-alanine/glycine/D-cycloserine:H+ symporter. D-serine/alanine/glycine/:H⁺symporter. D-serine/alanine/glycine/:H⁺symporter
• Curated sequence F2HQ24: Serine transporter, SerP2 or YdgB, of 459 aas and 12 TMSs (Trip et al. 2013). Transports L-alanine (Km = 20 μM), D-alanine (Km = 38 μM), L-serine, D-serine (Km = 356 μM) and glycine (Noens and Lolkema 2015). The encoding gene is adjacent to the one encoding SerP1 (TC# 2.A.3.1.21)
• Curated sequence M1IW84: D-serine/L-alanine/D-alanine/glycine/D-cycloserine uptake porter of 556 aas, CycA
• Curated sequence Q2VQZ4: Arbuscular mycorrhizal fungal proline:H+ symporter, AAP1 (binds and probably transports nonpolar, hydrophobic amino acids)
• Curated sequence GFF1065: L-alanine and D-alanine permease
• Curated sequence AO353_16120: D-alanine and L-alanine transporter
• Curated sequence AO356_17670: L-alanine and D-alanine permease
• Ignore hits to A0A0H2VDI7 when looking for 'other' hits (D-serine/D-alanine/glycine transporter)
• Curated sequence A2RI86: DL-alanine permease SerP2
• Curated sequence P19145: general amino-acid permease GAP1. General amino-acid permease GAP1. General amino acid permease (all L-amino acids and some D-amino acids as well as β-alanine, polyamines and GABA)
• Curated sequence A0A1D8PK89: General amino-acid permease GAP2. General amino and permease and transceptor, GAP2. Transports all amino acids including citruline and eight tested toxic amino acid derivatives
• Comment: A sequence nearly identical to E. coli K-12's cycA (CYCA_ECOL6 / A0A0H2VDI7) is annotated as a D-alanine transporter only, ignore. And add DL-alanine permease SERP2_LACLM / A2RI86. And add general amino-acid permease GAP1_YEAST / P19145, GAP2_CANAL / A0A1D8PK89.

Fetched 10 sequences

Running BLASTp

Found similarities, at above 30% identity and 75% coverage, for 10 of these sequences

Found 2 clusters of similar sequences. Download as table or as draft rules or view by organism

Cluster 1 457-556 amino acids (not heteromeric)

b4208 D-serine/alanine/glycine/:H⁺symporter from Escherichia coli K-12 substr. MG1655
P0AAE0 D-serine/alanine/glycine/:H⁺symporter from Escherichia coli (strain K12)
CYCA_ECOLI / P0AAE0 D-serine/D-alanine/glycine transporter from Escherichia coli (strain K12)
TC 2.A.3.1.7 / P0AAE0 D-Serine/D-alanine/glycine/D-cycloserine:H+ symporter from Escherichia coli
PFams: AA_permease, AA_permease_2
470 amino acids: PaperBLAST, CDD, Compare to cluster

SERP2_LACLM / A2RI86 DL-alanine permease SerP2 from Lactococcus lactis subsp. cremoris (strain MG1363)
PFams: AA_permease, AA_permease_2
460 amino acids: PaperBLAST, CDD, Compare to cluster

TC 2.A.3.1.20 / F2HQ24 Serine transporter, SerP2 or YdgB, of 459 aas and 12 TMSs (Trip et al. 2013). Transports L-alanine (Km = 20 μM), D-alanine (Km = 38 μM), L-serine, D-serine (Km = 356 μM) and glycine (Noens and Lolkema 2015). The encoding gene is adjacent to the one encoding SerP1 (TC# 2.A.3.1.21) from Lactococcus lactis subsp. lactis (strain CV56)
PFams: AA_permease, AA_permease_2
457 amino acids: PaperBLAST, CDD, Compare to cluster

TC 2.A.3.1.17 / M1IW84 D-serine/L-alanine/D-alanine/glycine/D-cycloserine uptake porter of 556 aas, CycA from Mycobacterium bovis BCG str. Korea 1168P
PFams: AA_permease, AA_permease_2
556 amino acids: PaperBLAST, CDD, Compare to cluster

TC 2.A.3.10.22 / Q2VQZ4 Arbuscular mycorrhizal fungal proline:H+ symporter, AAP1 (binds and probably transports nonpolar, hydrophobic amino acids) from Glomus mosseae
PFams: AA_permease, AA_permease_2
536 amino acids: PaperBLAST, CDD, Compare to cluster

PS417_05405 L-alanine and D-alanine permease from Pseudomonas simiae WCS417
PFams: AA_permease, AA_permease_2
472 amino acids: PaperBLAST, CDD, Compare to cluster

AO353_16120 D-alanine and L-alanine transporter from Pseudomonas fluorescens FW300-N2E3
PFams: AA_permease, AA_permease_2
472 amino acids: PaperBLAST, CDD, Compare to cluster

AO356_17670 L-alanine and D-alanine permease from Pseudomonas fluorescens FW300-N2C3
PFams: AA_permease, AA_permease_2
473 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 2 588-602 amino acids (not heteromeric)

GAP1_YEAST / P19145 General amino-acid permease GAP1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
TC 2.A.3.10.2 / P19145 General amino acid permease (all L-amino acids and some D-amino acids as well as β-alanine, polyamines and GABA) from Saccharomyces cerevisiae (Baker's yeast)
RF|NP_012965.1 general amino-acid permease GAP1 from Saccharomyces cerevisiae
PFams: AA_permease, AA_permease_2
602 amino acids: PaperBLAST, CDD, Compare to cluster

GAP2_CANAL / A0A1D8PK89 General amino-acid permease GAP2 from Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
TC 2.A.3.10.24 / Q59YT0 General amino and permease and transceptor, GAP2. Transports all amino acids including citruline and eight tested toxic amino acid derivatives from Candida albicans
PFams: AA_permease, AA_permease_2
588 amino acids: PaperBLAST, CDD, Compare to cluster