Clusters of Characterized Proteins

GapMind for Amino acid biosynthesis

Clustering the characterized proteins for trpB (tryptophan synthase) in L-tryptophan biosynthesis

Definition of trpB

HMM TIGR00263
UniProt sequence P50383: RecName: Full=Tryptophan synthase beta chain 1; EC=4.2.1.20;
Curated sequence Q97TX6: tryptophan synthase (EC 4.2.1.20)
Ignore hits to items matching EC 4.2.1.20 when looking for 'other' hits
Ignore hits to items matching EC 4.2.1.122 when looking for 'other' hits
Comment: Some members of TIGR01415 might also have this activity. The family also includes indole-scavenging "trpB-2" proteins, whose presence generally indicates tryptophan synthesis (EC 4.2.1.122). The enzyme from Pyrolobus is not matched by the HMM, but is similar to the characterized trpB from Sulfolobus (P50383, see PMID:11029579) or Saccharolobus (Q97TX6) "TrpB2" proteins are reported to use phosphoserine (an intermediate in serine synthesis) rather than serine as a substrate (PMID:25184516); GapMind does not try to distinguish them from TrpB.

Fetched 4 sequences

Running BLASTp

Found similarities, at above 30% identity and 75% coverage, for 4 of these sequences

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

Q97TX6 tryptophan synthase (EC 4.2.1.20) from Saccharolobus solfataricus
PFams: PALP
429 amino acids: PaperBLAST, CDD, Compare to cluster

P50383 Tryptophan synthase beta chain 1; EC=4.2.1.20
425 amino acids: PaperBLAST, CDD, Compare to cluster

CH_122413 bifunctional tryptophan synthase TRPB (from HMM only) from Emericella nidulans
PFams: Trp_syntA, PALP
723 amino acids: PaperBLAST, CDD, Compare to cluster

CH_123254 likely tryptophan synthetase alpha chain (from HMM only) from Candida albicans
PFams: Trp_syntA, PALP
702 amino acids: PaperBLAST, CDD, Compare to cluster