Detailed information    

experimental Experimentally validated

Overview

Name   amiD   Type   Regulator
Locus tag   STU_RS16120 Genome accession   NC_006448
Coordinates   1273761..1274687 (-) Length   308 a.a.
NCBI ID   WP_002946409.1    Uniprot ID   Q5M3H5
Organism   Streptococcus thermophilus LMG 18311     
Function   internalize XIP   
Competence regulation

Function

XIP peptides are recognized by the oligopeptide-binding protein AmiA3 and internalized by the oligopeptide Ami transporter (AmiCDEF).


Genomic Context

Location: 1268761..1279687
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  STU_RS16090 (stu1434) - 1268839..1269633 (-) 795 WP_011226299.1 HAD hydrolase family protein -
  STU_RS16095 (stu1435) - 1269817..1270194 (+) 378 WP_011226300.1 GntR family transcriptional regulator -
  STU_RS16100 (stu1436) - 1270199..1270897 (+) 699 WP_011226301.1 ABC transporter ATP-binding protein -
  STU_RS16105 (stu1437) - 1270909..1271694 (+) 786 WP_002951425.1 hypothetical protein -
  STU_RS16110 (stu1438) amiF 1271744..1272673 (-) 930 WP_002951426.1 ATP-binding cassette domain-containing protein Regulator
  STU_RS16115 (stu1439) amiE 1272666..1273751 (-) 1086 WP_011226304.1 ABC transporter ATP-binding protein Regulator
  STU_RS16120 (stu1440) amiD 1273761..1274687 (-) 927 WP_002946409.1 oligopeptide ABC transporter permease OppC Regulator
  STU_RS16125 (stu1441) amiC 1274687..1276180 (-) 1494 WP_002946410.1 ABC transporter permease Regulator
  STU_RS16130 (stu1442) amiA 1276242..1278209 (-) 1968 WP_011225333.1 peptide ABC transporter substrate-binding protein Regulator

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  amiD comS positive effect
  comS comS positive effect
  comS comX positive effect
  amiC comS positive effect
  eeP comS positive effect
  comR comS positive effect
  amiF comS positive effect
  amiA3 comS positive effect
  amiE comS positive effect
  comX ssbA positive effect
  comX comGE positive effect
  comX comGB positive effect
  comX comGD positive effect
  comX comGF positive effect
  comX comGG positive effect
  comX radA positive effect
  comX comEC positive effect
  comX comFC positive effect
  comX positive effect
  comX comEA positive effect
  comX comGC positive effect
  comX cinA positive effect
  comX coiA positive effect
  comX comGA positive effect
  comX comFA positive effect
  comX dprA positive effect
  clpC comX negative effect
  comR comX positive effect
  clpP comX negative effect
  mecA comX negative effect

Sequence

Protein


Download         Length: 308 a.a.        Molecular weight: 34694.85 Da        Isoelectric Point: 9.7054

>NTDB_id=326 STU_RS16120 WP_002946409.1 1273761..1274687(-) (amiD) [Streptococcus thermophilus LMG 18311]
MASIDKSKFQFVKRDDFASETIDAPSYSYWKSVMRQFFKKKSTVVMLGILITIILMSFIYPMFSKFDFNDVSKVNDFSLR
YVHPNAQYWFGTDGNGKSLFDSVWFGARNSILIAVIATFLNVIIGLLVGAVWGISKTFDMIMMEIYNIISNIPSLLVVIV
LTYSLGAGFWNMIFAMTVTGWIGIAYTIRIQIMRYRDLEYNLASRNLGTPTAKIVIKNIMPQLVSVIVTMASQLLPGFIS
YEAFLSYFGLGLPVTTPSLGRLISDYAQNVTVNAYLFWIPLTTLILVSLALFIVGQNLADASDPRTHR

Nucleotide


Download         Length: 927 bp        

>NTDB_id=326 STU_RS16120 WP_002946409.1 1273761..1274687(-) (amiD) [Streptococcus thermophilus LMG 18311]
ATGGCTTCAATTGATAAAAGTAAGTTCCAATTTGTAAAGCGCGATGATTTTGCCTCTGAAACAATTGATGCACCGTCTTA
CTCATACTGGAAATCAGTGATGCGTCAATTTTTTAAAAAGAAATCAACAGTTGTAATGTTGGGAATCTTGATTACTATTA
TTTTAATGAGTTTCATCTACCCAATGTTTTCTAAATTTGACTTCAATGATGTCTCAAAAGTAAATGATTTCAGTTTGCGT
TATGTACATCCAAACGCTCAATACTGGTTCGGTACTGACGGTAATGGTAAGTCTCTATTTGACAGTGTTTGGTTTGGGGC
TCGTAATTCTATCCTTATCGCTGTTATCGCTACCTTCCTGAATGTTATAATTGGTTTGCTTGTAGGTGCTGTTTGGGGGA
TTTCTAAGACCTTCGATATGATTATGATGGAAATCTACAACATCATCTCAAATATTCCCTCTCTCCTTGTGGTTATCGTC
TTGACTTACTCATTAGGTGCTGGTTTCTGGAATATGATTTTTGCCATGACCGTAACAGGTTGGATCGGTATTGCCTATAC
AATCCGTATTCAAATCATGCGTTATCGTGATTTGGAGTATAACTTGGCTTCTCGCAATTTGGGAACACCAACGGCTAAGA
TTGTGATTAAAAATATCATGCCACAACTTGTGTCAGTTATTGTAACCATGGCTAGTCAACTTTTGCCAGGATTTATCTCT
TATGAGGCCTTCCTTTCATACTTTGGTTTGGGTCTTCCTGTTACTACGCCTAGTCTTGGTCGTTTGATTTCAGACTATGC
ACAGAACGTTACAGTCAATGCCTATCTCTTCTGGATTCCATTGACTACCTTGATTCTTGTTTCTCTTGCCCTCTTTATTG
TTGGTCAAAACTTAGCGGATGCTAGTGACCCACGTACGCATAGATAG

Domains

Predicted by InterProScan.

N-terminal TM domain of oligopeptide transport permease C (OppC_N)

(28-71)

Binding-protein-dependent transport system inner membrane component (BPD_transp_1)

(125-306)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q5M3H5

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  amiD Streptococcus thermophilus LMD-9

100

100

1
  amiD Streptococcus salivarius strain HSISS4

96.429

100

0.964

Multiple sequence alignment    



References

[1] Rozenn Gardan et al. (2013) Extracellular life cycle of ComS, the competence-stimulating peptide of Streptococcus thermophilus. Journal of Bacteriology 195(8):1845-55. [PMID: 23396911]
[2] Laetitia Fontaine et al. (2010) A novel pheromone quorum-sensing system controls the development of natural competence in Streptococcus thermophilus and Streptococcus salivarius. Journal of Bacteriology 192(5):1444-54. [PMID: 20023010]
[3] Rozenn Gardan et al. (2009) The oligopeptide transport system is essential for the development of natural competence in Streptococcus thermophilus strain LMD-9. Journal of Bacteriology 191(14):4647-55. [PMID: 19447907]