Detailed information    

experimental Experimentally validated

Overview

Name   amiF   Type   Regulator
Locus tag   HSISS4_RS06980 Genome accession   NZ_CP013216
Coordinates   1556648..1557577 (-) Length   309 a.a.
NCBI ID   WP_021143812.1    Uniprot ID   A0AAX2V221
Organism   Streptococcus salivarius strain HSISS4     
Function   internalize XIP   
Competence regulation

Function

We have shown the necessity for a pheromone exporter (PptAB) and a peptide importer (Ami/Opp) for competence activation through ComR overproduction.


Genomic Context

Location: 1551648..1562577
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HSISS4_RS06955 (HSISS4_01356) - 1552932..1553750 (-) 819 WP_021143817.1 Cof-type HAD-IIB family hydrolase -
  HSISS4_RS06960 (HSISS4_01357) - 1553743..1554537 (-) 795 WP_021143816.1 HAD-IIB family hydrolase -
  HSISS4_RS06965 (HSISS4_01358) - 1554719..1555096 (+) 378 WP_021143815.1 GntR family transcriptional regulator -
  HSISS4_RS06970 (HSISS4_01359) - 1555101..1555799 (+) 699 WP_021143814.1 ABC transporter ATP-binding protein -
  HSISS4_RS06975 (HSISS4_01360) - 1555811..1556596 (+) 786 WP_021143813.1 hypothetical protein -
  HSISS4_RS06980 (HSISS4_01361) amiF 1556648..1557577 (-) 930 WP_021143812.1 ATP-binding cassette domain-containing protein Regulator
  HSISS4_RS06985 (HSISS4_01362) amiE 1557570..1558655 (-) 1086 WP_021143811.1 ABC transporter ATP-binding protein Regulator
  HSISS4_RS06990 (HSISS4_01363) amiD 1558665..1559591 (-) 927 WP_021143810.1 oligopeptide ABC transporter permease OppC Regulator
  HSISS4_RS06995 (HSISS4_01364) amiC 1559591..1561084 (-) 1494 WP_013990225.1 ABC transporter permease Regulator

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  amiF comS positive effect
  comS comX/sigX positive effect
  comX/sigX late competence genes positive effect
  comX/sigX late competence genes positive effect
  stkP/pknB comX/sigX positive effect
  comR comX/sigX positive effect
  covS comR negative effect
  covR comR negative effect
  pptA comS positive effect
  amiD comS positive effect
  pptB comS positive effect
  amiE comS positive effect
  amiC comS positive effect
  pepF comS negative effect
  amiA comS positive effect

Sequence

Protein


Download         Length: 309 a.a.        Molecular weight: 35005.11 Da        Isoelectric Point: 6.8971

>NTDB_id=479 HSISS4_RS06980 WP_021143812.1 1556648..1557577(-) (amiF) [Streptococcus salivarius strain HSISS4]
MPEKLVEVKDVEISFGEGSKKFVAVHNANFFINKGETFSLVGESGSGKTTIGRAIIGLNDTSNGEIIFDGKKINGHLSHS
EKNDLIRRIQMIFQDPAASLNERATVDYILSEGLHNFHLYKDEEDRKAKIKKIIKEVGLLEEHLTRYPHEFSGGQRQRIG
IARSLVMQPDLVIADEPISALDVSVRAQVLNLLKKFQKELGLTYLFIAHDLSVVRFISDRIAVIYKGTIVEVAETEELYN
NPIHPYTKSLLSAVPIPDPILERKKVLKVYDPNQHDYSVDKPEMVEVRPGHFVWGNKAEIETYRKEQSK

Nucleotide


Download         Length: 930 bp        

>NTDB_id=479 HSISS4_RS06980 WP_021143812.1 1556648..1557577(-) (amiF) [Streptococcus salivarius strain HSISS4]
ATGCCTGAGAAGTTAGTTGAAGTAAAAGATGTGGAGATTTCCTTCGGTGAAGGAAGCAAGAAATTCGTTGCTGTCCACAA
TGCTAATTTTTTCATCAACAAGGGTGAAACCTTTTCCCTCGTTGGTGAGTCTGGTAGTGGTAAAACCACTATCGGGCGTG
CCATTATTGGTCTAAATGATACAAGTAATGGTGAGATTATTTTTGACGGTAAGAAAATCAATGGACACTTGTCTCACTCT
GAGAAAAACGACCTTATTCGTCGTATCCAGATGATTTTCCAAGACCCTGCGGCTAGTTTGAATGAACGTGCAACAGTCGA
TTATATCTTGTCTGAGGGCTTGCATAACTTCCATCTCTATAAGGATGAGGAAGATCGTAAAGCTAAAATCAAGAAAATCA
TCAAAGAAGTGGGACTTCTTGAGGAGCACTTGACACGTTACCCTCACGAATTTTCTGGGGGACAACGTCAACGTATTGGG
ATTGCACGTTCCTTGGTCATGCAACCTGATTTGGTTATCGCTGACGAACCCATCTCAGCCCTTGACGTGTCAGTTCGTGC
CCAAGTTTTGAACTTGCTTAAGAAATTCCAAAAAGAGTTGGGATTGACCTACCTCTTTATCGCTCACGACTTGTCAGTGG
TCCGTTTCATTTCTGACCGTATTGCTGTTATTTACAAGGGGACAATCGTGGAAGTTGCTGAGACAGAAGAACTCTACAAC
AATCCTATCCACCCTTACACCAAGTCACTCTTGTCTGCTGTTCCTATTCCAGACCCAATCTTGGAACGTAAGAAAGTCTT
GAAGGTTTATGATCCAAACCAACACGACTATTCTGTCGATAAACCAGAAATGGTTGAAGTACGTCCAGGACACTTCGTTT
GGGGTAACAAGGCCGAAATCGAGACTTATCGTAAAGAACAAAGTAAATAA

Domains

Predicted by InterproScan.

Oligopeptide/dipeptide transporter, C-terminal region (oligo_HPY)

(230-262)

ABC transporter (ABC_tran)

(26-178)


Secondary structure

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



3D structure

Source ID Structure

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
  amiF Streptococcus thermophilus LMG 18311

98.058

100

0.981
  amiF Streptococcus thermophilus LMD-9

97.735

100

0.977

Multiple sequence alignment    



References

[1] Adrien Knoops et al. (2022) The CovRS Environmental Sensor Directly Controls the ComRS Signaling System To Orchestrate Competence Bimodality in Salivarius Streptococci. MBio 13(1):e0312521. [PMID: 35089064]