Detailed information    

insolico Bioinformatically predicted

Overview

Name   amiF   Type   Regulator
Locus tag   STAVA116_RS06300 Genome accession   NZ_CP065498
Coordinates   1224313..1225242 (-) Length   309 a.a.
NCBI ID   WP_002951426.1    Uniprot ID   A0A7U7CIU5
Organism   Streptococcus thermophilus strain AVA116     
Function   internalize XIP (predicted from homology)   
Competence regulation

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
ICE 1208784..1278600 1224313..1225242 within 0


Gene organization within MGE regions


Location: 1208784..1278600
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  STAVA116_RS06225 (STAVA116_06195) liaF 1208792..1209490 (-) 699 WP_011226289.1 cell wall-active antibiotics response protein LiaF -
  STAVA116_RS06230 - 1209745..1209912 (-) 168 WP_224103618.1 potassium channel family protein -
  STAVA116_RS06235 (STAVA116_06205) stkP/pknB 1210550..1212421 (-) 1872 WP_087010057.1 Stk1 family PASTA domain-containing Ser/Thr kinase Regulator
  STAVA116_RS06240 (STAVA116_06210) - 1212421..1213158 (-) 738 WP_002946881.1 Stp1/IreP family PP2C-type Ser/Thr phosphatase -
  STAVA116_RS06245 (STAVA116_06215) rsmB 1213202..1214524 (-) 1323 WP_087010267.1 16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB -
  STAVA116_RS06250 (STAVA116_06220) fmt 1214514..1215449 (-) 936 WP_002946883.1 methionyl-tRNA formyltransferase -
  STAVA116_RS06255 (STAVA116_06225) - 1215467..1217863 (-) 2397 WP_087010058.1 primosomal protein N' -
  STAVA116_RS06260 (STAVA116_06230) rpoZ 1218005..1218319 (-) 315 WP_002951415.1 DNA-directed RNA polymerase subunit omega -
  STAVA116_RS06265 (STAVA116_06235) gmk 1218341..1218970 (-) 630 WP_002951416.1 guanylate kinase -
  STAVA116_RS06270 (STAVA116_06240) ftsY 1219196..1220587 (-) 1392 WP_087010059.1 signal recognition particle-docking protein FtsY -
  STAVA116_RS06275 (STAVA116_06245) - 1220601..1221416 (-) 816 WP_087010060.1 Cof-type HAD-IIB family hydrolase -
  STAVA116_RS06280 (STAVA116_06250) - 1221409..1222203 (-) 795 WP_087010061.1 HAD family hydrolase -
  STAVA116_RS06285 (STAVA116_06255) - 1222386..1222763 (+) 378 WP_087010062.1 GntR family transcriptional regulator -
  STAVA116_RS06290 (STAVA116_06260) - 1222768..1223466 (+) 699 WP_087010063.1 ABC transporter ATP-binding protein -
  STAVA116_RS06295 (STAVA116_06265) - 1223478..1224263 (+) 786 WP_002951425.1 hypothetical protein -
  STAVA116_RS06300 (STAVA116_06270) amiF 1224313..1225242 (-) 930 WP_002951426.1 ATP-binding cassette domain-containing protein Regulator
  STAVA116_RS06305 (STAVA116_06275) amiE 1225235..1226320 (-) 1086 WP_011226304.1 ABC transporter ATP-binding protein Regulator
  STAVA116_RS06310 (STAVA116_06280) amiD 1226330..1227256 (-) 927 WP_002946409.1 oligopeptide ABC transporter permease OppC Regulator
  STAVA116_RS06315 (STAVA116_06285) amiC 1227256..1228749 (-) 1494 WP_002946410.1 ABC transporter permease Regulator
  STAVA116_RS06320 (STAVA116_06290) amiA 1228811..1230778 (-) 1968 WP_087010065.1 peptide ABC transporter substrate-binding protein Regulator
  STAVA116_RS06325 (STAVA116_06295) - 1231164..1232365 (+) 1202 Protein_1203 ISL3 family transposase -
  STAVA116_RS06330 (STAVA116_06300) amiA3 1232410..1234383 (-) 1974 WP_087010066.1 peptide ABC transporter substrate-binding protein Regulator
  STAVA116_RS06335 (STAVA116_06305) - 1234587..1234777 (-) 191 Protein_1205 IS3 family transposase -
  STAVA116_RS06340 (STAVA116_06310) - 1234771..1235172 (-) 402 Protein_1206 ABC transporter ATP-binding protein -
  STAVA116_RS06345 (STAVA116_06315) - 1235167..1235527 (-) 361 Protein_1207 TatD family hydrolase -
  STAVA116_RS06350 (STAVA116_06320) - 1235876..1237081 (+) 1206 WP_011227415.1 OFA family MFS transporter -
  STAVA116_RS06355 (STAVA116_06325) - 1237128..1238479 (-) 1352 Protein_1209 IS3 family transposase -
  STAVA116_RS06360 (STAVA116_06330) pta 1238565..1239548 (-) 984 WP_011227420.1 phosphate acetyltransferase -
  STAVA116_RS06365 (STAVA116_06335) - 1239562..1240458 (-) 897 WP_087010067.1 RluA family pseudouridine synthase -
  STAVA116_RS06370 (STAVA116_06340) - 1240455..1241291 (-) 837 WP_087010068.1 NAD kinase -
  STAVA116_RS06375 (STAVA116_06345) - 1241263..1241937 (-) 675 WP_002951443.1 GTP pyrophosphokinase family protein -
  STAVA116_RS06380 (STAVA116_06350) - 1242033..1242608 (+) 576 WP_002951444.1 CYTH domain-containing protein -
  STAVA116_RS06385 (STAVA116_06355) - 1242973..1243944 (+) 972 WP_002951446.1 ribose-phosphate diphosphokinase -
  STAVA116_RS06390 (STAVA116_06360) - 1243948..1245060 (+) 1113 WP_002948029.1 cysteine desulfurase family protein -
  STAVA116_RS06395 (STAVA116_06365) - 1245062..1245409 (+) 348 WP_011226321.1 DUF1831 domain-containing protein -
  STAVA116_RS06400 (STAVA116_06370) - 1245554..1246213 (+) 660 WP_087010069.1 redox-sensing transcriptional repressor Rex -
  STAVA116_RS06405 (STAVA116_06375) - 1246206..1246901 (+) 696 WP_002951449.1 gamma-glutamyl-gamma-aminobutyrate hydrolase family protein -
  STAVA116_RS06410 (STAVA116_06380) radC 1246954..1247640 (-) 687 WP_087010070.1 DNA repair protein RadC -
  STAVA116_RS06415 (STAVA116_06385) - 1247689..1249473 (-) 1785 WP_087010071.1 rhamnan synthesis F family protein -
  STAVA116_RS06420 (STAVA116_06390) - 1249470..1250525 (-) 1056 WP_002948022.1 glycosyltransferase -
  STAVA116_RS06425 (STAVA116_06395) - 1250545..1251750 (-) 1206 WP_014727633.1 ABC transporter ATP-binding protein -
  STAVA116_RS06430 (STAVA116_06400) - 1251750..1252559 (-) 810 WP_002948020.1 ABC transporter permease -
  STAVA116_RS06435 (STAVA116_06405) - 1252543..1253499 (-) 957 WP_011226328.1 glycosyltransferase family 2 protein -
  STAVA116_RS06440 (STAVA116_06410) - 1253496..1254644 (-) 1149 WP_087010072.1 glycosyltransferase family 1 protein -
  STAVA116_RS06445 (STAVA116_06415) - 1254751..1256292 (-) 1542 WP_087010073.1 DUF2142 domain-containing protein -
  STAVA116_RS06450 (STAVA116_06420) - 1256295..1257302 (-) 1008 WP_087010074.1 glycosyltransferase family A protein -
  STAVA116_RS06455 (STAVA116_06425) - 1257302..1258576 (-) 1275 WP_087010075.1 polysaccharide biosynthesis protein -
  STAVA116_RS06460 (STAVA116_06430) - 1258569..1258901 (-) 333 WP_011226332.1 DUF2304 domain-containing protein -
  STAVA116_RS06465 (STAVA116_06435) - 1258907..1259602 (-) 696 WP_172838695.1 glycosyltransferase family 2 protein -
  STAVA116_RS06470 (STAVA116_06440) rfbD 1259679..1260530 (-) 852 WP_087010077.1 dTDP-4-dehydrorhamnose reductase -
  STAVA116_RS06475 - 1260607..1261338 (-) 732 WP_269456722.1 DUF6056 family protein -
  STAVA116_RS06480 - 1261364..1261747 (-) 384 WP_269456730.1 DUF6056 family protein -
  STAVA116_RS06485 - 1261719..1261934 (-) 216 WP_231906165.1 DUF6056 family protein -
  STAVA116_RS06490 (STAVA116_06450) - 1262047..1262973 (-) 927 WP_087010078.1 glycosyltransferase family 2 protein -
  STAVA116_RS06495 (STAVA116_06455) - 1262983..1263318 (-) 336 WP_002891474.1 metal-sulfur cluster assembly factor -
  STAVA116_RS06500 (STAVA116_06460) rpoD 1263372..1264481 (-) 1110 WP_011226338.1 RNA polymerase sigma factor RpoD -
  STAVA116_RS06505 (STAVA116_06465) dnaG 1264485..1266296 (-) 1812 WP_011681448.1 DNA primase -
  STAVA116_RS06510 (STAVA116_06470) mscL 1266436..1266519 (+) 84 Protein_1240 large conductance mechanosensitive channel protein MscL -
  STAVA116_RS06515 (STAVA116_06475) rpsU 1266679..1266855 (-) 177 WP_011681449.1 30S ribosomal protein S21 -
  STAVA116_RS06520 (STAVA116_06480) - 1267050..1267844 (-) 795 WP_023909836.1 ABC transporter substrate-binding protein -
  STAVA116_RS06525 (STAVA116_06485) - 1267937..1269046 (-) 1110 WP_014608576.1 aminotransferase -
  STAVA116_RS06530 (STAVA116_06490) - 1269393..1270190 (-) 798 WP_087010080.1 transporter substrate-binding domain-containing protein -
  STAVA116_RS06535 (STAVA116_06495) - 1270187..1271017 (-) 831 WP_087010081.1 transporter substrate-binding domain-containing protein -
  STAVA116_RS06540 (STAVA116_06500) - 1271230..1271694 (-) 465 WP_011226345.1 8-oxo-dGTP diphosphatase -
  STAVA116_RS06545 (STAVA116_06505) uvrB 1271739..1273730 (-) 1992 WP_002953358.1 excinuclease ABC subunit UvrB -
  STAVA116_RS06550 (STAVA116_06510) - 1273877..1274344 (-) 468 WP_087010082.1 hypothetical protein -
  STAVA116_RS06555 - 1274417..1275352 (-) 936 Protein_1249 type II CAAX endopeptidase family protein -
  STAVA116_RS06560 (STAVA116_06525) - 1275552..1277762 (+) 2211 WP_011226350.1 ABC transporter substrate-binding protein/permease -
  STAVA116_RS06565 (STAVA116_06530) - 1277762..1278502 (+) 741 WP_002945131.1 amino acid ABC transporter ATP-binding protein -

Sequence

Protein


Download         Length: 309 a.a.        Molecular weight: 35171.28 Da        Isoelectric Point: 6.5989

>NTDB_id=511143 STAVA116_RS06300 WP_002951426.1 1224313..1225242(-) (amiF) [Streptococcus thermophilus strain AVA116]
MPEKLVEVKDVEISFGEGRKKFVAVHNANFFINKGETFSLVGESGSGKTTIGRAIIGLNDTSNGEIIFDGKKINGYLSHS
EKNDLIRRIQMIFQDPAASLNERATVDYILSEGLYNFHLYKDEEERKAKIKEIIKEVGLLEEHLTRYPHEFSGGQRQRIG
IARSLVMQPDLVIADEPISALDVSVRAQVLNLLKKFQKELGLTYLFIAHDLSVVRFISDRIAVIYKGTIVEVAETEELYN
NPIHPYTKSLLSAVPIPDPILERKKVLKVYDPNQHDYSVDKPEMVEVRPGHFVWGNKTEIETYRKEQSK

Nucleotide


Download         Length: 930 bp        

>NTDB_id=511143 STAVA116_RS06300 WP_002951426.1 1224313..1225242(-) (amiF) [Streptococcus thermophilus strain AVA116]
ATGCCTGAGAAATTAGTTGAAGTAAAAGATGTGGAAATTTCCTTCGGCGAAGGAAGAAAGAAGTTCGTTGCTGTCCACAA
TGCTAATTTTTTCATCAACAAGGGTGAAACCTTCTCCCTCGTTGGTGAGTCTGGTAGTGGTAAAACGACTATTGGACGTG
CCATTATCGGTTTAAATGACACAAGTAATGGTGAGATTATTTTTGACGGTAAGAAGATCAATGGATACTTATCTCACTCT
GAGAAAAACGACCTTATCCGTCGTATTCAGATGATTTTCCAAGACCCTGCGGCTAGTTTGAATGAACGTGCGACAGTCGA
TTATATCTTGTCTGAGGGCTTGTACAATTTCCATCTTTATAAAGATGAGGAAGAACGTAAGGCTAAAATCAAGGAAATCA
TCAAAGAAGTAGGACTTCTTGAGGAGCACTTAACACGTTACCCTCACGAATTTTCTGGGGGACAACGTCAACGTATCGGG
ATTGCGCGTTCTTTGGTCATGCAGCCTGATTTGGTTATCGCTGATGAACCAATCTCAGCCCTTGACGTGTCAGTTCGTGC
CCAAGTTTTGAATTTGCTTAAGAAATTCCAAAAAGAGTTGGGGTTAACCTATCTCTTTATCGCTCACGATTTGTCAGTGG
TCCGTTTCATTTCTGACCGTATCGCTGTTATCTATAAGGGGACAATCGTGGAAGTTGCTGAGACAGAAGAGCTCTACAAC
AATCCTATCCATCCTTATACCAAGTCACTCTTGTCTGCTGTTCCTATTCCAGATCCAATCTTGGAACGTAAGAAAGTCTT
GAAGGTTTATGATCCAAACCAACACGACTATTCGGTTGATAAACCAGAAATGGTGGAAGTACGCCCAGGTCACTTCGTTT
GGGGTAATAAGACAGAAATTGAGACTTATCGTAAAGAACAAAGTAAGTAA

Domains

Predicted by InterproScan.

ABC transporter (ABC_tran)

(26-178)

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

(230-262)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A7U7CIU5

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

100

100

1
  amiF Streptococcus thermophilus LMD-9

99.676

100

0.997
  amiF Streptococcus salivarius strain HSISS4

98.058

100

0.981