Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   LLA12_RS09600 Genome accession   NZ_LT599049
Coordinates   1988774..1989199 (-) Length   141 a.a.
NCBI ID   WP_021722238.1    Uniprot ID   -
Organism   Lactococcus lactis subsp. lactis strain A12     
Function   ssDNA binding (predicted from homology)   
DNA processing

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)
Prophage 1959023..1997446 1988774..1989199 within 0


Gene organization within MGE regions


Location: 1959023..1997446
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LLA12_RS09380 (LLA12_01996) - 1959023..1959319 (-) 297 WP_021722194.1 type II toxin-antitoxin system RelE/ParE family toxin -
  LLA12_RS09385 (LLA12_01997) - 1959490..1959711 (-) 222 WP_023349381.1 hypothetical protein -
  LLA12_RS09390 (LLA12_01998) - 1959757..1960536 (-) 780 WP_021722195.1 peptidoglycan amidohydrolase family protein -
  LLA12_RS09395 (LLA12_01999) - 1960536..1960811 (-) 276 WP_021722196.1 holin -
  LLA12_RS09400 (LLA12_02000) - 1960824..1961048 (-) 225 WP_021722197.1 hemolysin XhlA family protein -
  LLA12_RS13800 (LLA12_02001) - 1961061..1962371 (-) 1311 WP_231947334.1 hypothetical protein -
  LLA12_RS13965 (LLA12_02002) - 1962464..1962601 (-) 138 WP_021722199.1 hypothetical protein -
  LLA12_RS09410 (LLA12_02003) - 1962598..1965027 (-) 2430 WP_021722200.1 gp58-like family protein -
  LLA12_RS09415 (LLA12_02004) - 1965039..1965404 (-) 366 WP_021722201.1 DUF6711 family protein -
  LLA12_RS09420 (LLA12_02005) - 1965416..1970197 (-) 4782 WP_021722202.1 SLT domain protein -
  LLA12_RS09425 (LLA12_02006) - 1970229..1970600 (-) 372 WP_021722203.1 hypothetical protein -
  LLA12_RS09430 (LLA12_02007) - 1970624..1971034 (-) 411 WP_021722204.1 DUF6096 family protein -
  LLA12_RS09435 (LLA12_02008) - 1971108..1971533 (-) 426 WP_021722205.1 phage tail tube protein -
  LLA12_RS09440 (LLA12_02009) - 1971546..1971908 (-) 363 WP_021722206.1 hypothetical protein -
  LLA12_RS09445 (LLA12_02010) - 1971908..1972456 (-) 549 WP_032946647.1 hypothetical protein -
  LLA12_RS09450 (LLA12_02011) - 1972440..1972793 (-) 354 WP_032946648.1 hypothetical protein -
  LLA12_RS09455 (LLA12_02012) - 1972774..1973103 (-) 330 WP_021722209.1 phage head-tail connector protein -
  LLA12_RS13970 (LLA12_02013) - 1973110..1973283 (-) 174 WP_021722210.1 hypothetical protein -
  LLA12_RS09460 (LLA12_02014) - 1973287..1974156 (-) 870 WP_021722211.1 phage major capsid protein -
  LLA12_RS09465 (LLA12_02015) - 1974168..1974824 (-) 657 WP_021722212.1 DUF4355 domain-containing protein -
  LLA12_RS09470 (LLA12_02016) - 1974989..1976095 (-) 1107 WP_021722213.1 minor capsid protein -
  LLA12_RS09475 (LLA12_02017) - 1976101..1976388 (-) 288 WP_021722214.1 ribosomal-processing cysteine protease Prp -
  LLA12_RS13975 (LLA12_02018) - 1976385..1976549 (-) 165 WP_167349361.1 hypothetical protein -
  LLA12_RS09480 (LLA12_02019) - 1976506..1978014 (-) 1509 WP_021722216.1 phage portal protein -
  LLA12_RS09485 (LLA12_02020) - 1978023..1979257 (-) 1235 Protein_1869 PBSX family phage terminase large subunit -
  LLA12_RS09490 (LLA12_02021) - 1979247..1979759 (-) 513 WP_021722218.1 terminase small subunit -
  LLA12_RS09495 (LLA12_02022) - 1980223..1980645 (-) 423 WP_021722219.1 RinA family protein -
  LLA12_RS09500 (LLA12_02024) - 1981263..1981472 (+) 210 WP_021722221.1 hypothetical protein -
  LLA12_RS09505 - 1981524..1981706 (-) 183 WP_021722222.1 DUF1660 domain-containing protein -
  LLA12_RS09510 (LLA12_02026) - 1981703..1981921 (-) 219 WP_021722223.1 hypothetical protein -
  LLA12_RS09515 (LLA12_02027) - 1981940..1982275 (-) 336 WP_068872834.1 DUF1140 family protein -
  LLA12_RS09520 (LLA12_02028) - 1982272..1982556 (-) 285 WP_021722225.1 hypothetical protein -
  LLA12_RS13805 (LLA12_02029) - 1982546..1982872 (-) 327 WP_021722226.1 hypothetical protein -
  LLA12_RS09530 (LLA12_02030) dut 1982872..1983291 (-) 420 WP_021722227.1 dUTP diphosphatase -
  LLA12_RS09535 (LLA12_02031) - 1983288..1983590 (-) 303 WP_231947335.1 hypothetical protein -
  LLA12_RS09540 (LLA12_02032) - 1983608..1984159 (-) 552 WP_021722229.1 DUF1642 domain-containing protein -
  LLA12_RS09545 (LLA12_02033) - 1984152..1984358 (-) 207 WP_010905356.1 DUF1125 domain-containing protein -
  LLA12_RS09550 (LLA12_02034) - 1984359..1984619 (-) 261 WP_021722230.1 hypothetical protein -
  LLA12_RS09555 (LLA12_02035) - 1984624..1984932 (-) 309 WP_032946652.1 hypothetical protein -
  LLA12_RS09560 (LLA12_02036) - 1984941..1985450 (-) 510 WP_021722232.1 phage protein -
  LLA12_RS09565 (LLA12_02037) - 1985461..1985826 (-) 366 WP_032946654.1 DUF658 family protein -
  LLA12_RS09570 (LLA12_02038) - 1985801..1985965 (-) 165 WP_021722234.1 hypothetical protein -
  LLA12_RS09575 (LLA12_02039) - 1986076..1986312 (-) 237 WP_032946700.1 DUF1031 family protein -
  LLA12_RS09580 (LLA12_02040) - 1986444..1986818 (-) 375 WP_021722235.1 DUF1064 domain-containing protein -
  LLA12_RS14190 (LLA12_02041) - 1986815..1987243 (-) 429 WP_230473239.1 hypothetical protein -
  LLA12_RS14195 (LLA12_02042) - 1987325..1987540 (-) 216 WP_230473240.1 hypothetical protein -
  LLA12_RS09590 (LLA12_02043) - 1987540..1988322 (-) 783 WP_021722236.1 phage replisome organizer protein -
  LLA12_RS09595 (LLA12_02044) - 1988322..1988648 (-) 327 WP_021722237.1 HNH endonuclease -
  LLA12_RS09600 (LLA12_02045) ssb 1988774..1989199 (-) 426 WP_021722238.1 single-stranded DNA-binding protein Machinery gene
  LLA12_RS09605 (LLA12_02046) - 1989196..1989951 (-) 756 WP_021722239.1 Rad52/Rad22 family DNA repair protein -
  LLA12_RS09610 (LLA12_02047) - 1989960..1990355 (-) 396 WP_011835837.1 hypothetical protein -
  LLA12_RS09615 (LLA12_02048) - 1990470..1990685 (-) 216 WP_021722240.1 DUF1408 domain-containing protein -
  LLA12_RS09620 (LLA12_02049) - 1990789..1991223 (+) 435 WP_032946657.1 hypothetical protein -
  LLA12_RS13810 - 1991213..1991365 (-) 153 WP_155242617.1 hypothetical protein -
  LLA12_RS14340 (LLA12_02050) - 1991381..1991509 (-) 129 WP_021722242.1 hypothetical protein -
  LLA12_RS09625 (LLA12_02051) - 1991523..1991783 (-) 261 WP_021722243.1 hypothetical protein -
  LLA12_RS09630 (LLA12_02052) - 1991797..1992534 (-) 738 WP_021722244.1 ORF6C domain-containing protein -
  LLA12_RS09635 (LLA12_02053) - 1992565..1992783 (-) 219 WP_010905683.1 DUF739 family protein -
  LLA12_RS09640 (LLA12_02054) - 1992952..1993494 (+) 543 WP_021722245.1 helix-turn-helix domain-containing protein -
  LLA12_RS09645 (LLA12_02055) - 1993491..1993928 (+) 438 WP_021722246.1 ImmA/IrrE family metallo-endopeptidase -
  LLA12_RS09650 (LLA12_02056) - 1993991..1994572 (+) 582 WP_068872835.1 hypothetical protein -
  LLA12_RS09655 (LLA12_02057) - 1994692..1995831 (+) 1140 WP_021722247.1 tyrosine-type recombinase/integrase -
  LLA12_RS09660 (LLA12_02058) sufB 1996034..1997446 (-) 1413 WP_004255207.1 Fe-S cluster assembly protein SufB -

Sequence

Protein


Download         Length: 141 a.a.        Molecular weight: 15798.53 Da        Isoelectric Point: 5.1972

>NTDB_id=1144877 LLA12_RS09600 WP_021722238.1 1988774..1989199(-) (ssb) [Lactococcus lactis subsp. lactis strain A12]
MINNVTLVGRITKEPELRYTQQNKAVASFTLAVNRQFKNANGEREADFINCVIWGKSAENLANWTHKGQLIGVIGNIQTR
NYENQQGQRVYVTEVVASNFQVLEKSNQVNGERVGNPAAKPQNNDSFGNDPMEISDDDLPF

Nucleotide


Download         Length: 426 bp        

>NTDB_id=1144877 LLA12_RS09600 WP_021722238.1 1988774..1989199(-) (ssb) [Lactococcus lactis subsp. lactis strain A12]
ATGATTAACAATGTCACTCTAGTAGGAAGAATCACTAAAGAACCTGAACTTAGATATACACAACAAAATAAAGCAGTTGC
TTCATTTACTCTTGCAGTTAATCGTCAATTTAAAAATGCTAATGGAGAAAGAGAAGCTGACTTCATCAATTGTGTTATCT
GGGGTAAATCAGCCGAAAACTTGGCCAATTGGACTCATAAAGGTCAATTAATTGGAGTTATTGGGAATATCCAAACTCGA
AACTATGAGAACCAACAAGGGCAACGTGTTTATGTTACGGAGGTTGTCGCAAGTAATTTCCAAGTACTAGAAAAAAGTAA
TCAAGTAAATGGTGAACGAGTTGGTAATCCAGCTGCAAAACCACAAAATAACGATTCTTTTGGAAATGATCCAATGGAAA
TTTCAGATGATGACCTGCCATTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-103)


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
  ssb Latilactobacillus sakei subsp. sakei 23K

55.882

100

0.674
  ssbA Bacillus subtilis subsp. subtilis str. 168

52.326

100

0.638
  ssbB/cilA Streptococcus mitis NCTC 12261

44.681

100

0.447
  ssbB/cilA Streptococcus pneumoniae TIGR4

44.681

100

0.447
  ssbB/cilA Streptococcus pneumoniae Rx1

43.972

100

0.44
  ssbB Streptococcus sobrinus strain NIDR 6715-7

43.972

100

0.44
  ssbB/cilA Streptococcus pneumoniae D39

43.972

100

0.44
  ssbB/cilA Streptococcus pneumoniae R6

43.972

100

0.44
  ssbB/cilA Streptococcus mitis SK321

43.972

100

0.44
  ssbB Bacillus subtilis subsp. subtilis str. 168

58.654

73.759

0.433
  ssbA Streptococcus mutans UA159

39.716

100

0.397
  ssbB Lactococcus lactis subsp. cremoris KW2

49.515

73.05

0.362

Multiple sequence alignment