Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   N4R43_RS10650 Genome accession   NZ_CP104388
Coordinates   2115890..2116315 (-) Length   141 a.a.
NCBI ID   WP_058207042.1    Uniprot ID   -
Organism   Lactococcus lactis strain LJL7m20     
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 2105797..2124742 2115890..2116315 within 0


Gene organization within MGE regions


Location: 2105797..2124742
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N4R43_RS10595 (N4R43_10610) - 2105797..2105997 (-) 201 WP_010905424.1 cold-shock protein -
  N4R43_RS10600 (N4R43_10615) - 2107104..2107247 (-) 144 WP_170275335.1 hypothetical protein -
  N4R43_RS10605 (N4R43_10620) - 2107330..2108307 (-) 978 WP_244735713.1 Abi family protein -
  N4R43_RS10610 (N4R43_10625) - 2108624..2109298 (-) 675 WP_317141298.1 hypothetical protein -
  N4R43_RS10615 (N4R43_10630) - 2109368..2110492 (-) 1125 WP_394804860.1 LysM peptidoglycan-binding domain-containing protein -
  N4R43_RS10620 (N4R43_10635) - 2110466..2111482 (-) 1017 Protein_2039 PBSX family phage terminase large subunit -
  N4R43_RS10625 (N4R43_10640) - 2111469..2111921 (-) 453 WP_042230504.1 terminase small subunit -
  N4R43_RS10630 (N4R43_10645) - 2112432..2112854 (-) 423 WP_058224330.1 RinA family protein -
  N4R43_RS10635 (N4R43_10650) - 2114211..2114420 (+) 210 WP_058223120.1 hypothetical protein -
  N4R43_RS10640 (N4R43_10655) - 2114569..2114754 (-) 186 WP_058223119.1 hypothetical protein -
  N4R43_RS10645 (N4R43_10660) - 2114959..2115759 (-) 801 WP_058207043.1 helix-turn-helix domain-containing protein -
  N4R43_RS10650 (N4R43_10665) ssb 2115890..2116315 (-) 426 WP_058207042.1 single-stranded DNA-binding protein Machinery gene
  N4R43_RS10655 (N4R43_10670) - 2116317..2117066 (-) 750 WP_317141299.1 Rad52/Rad22 family DNA repair protein -
  N4R43_RS10660 (N4R43_10675) - 2117075..2117470 (-) 396 WP_058207040.1 hypothetical protein -
  N4R43_RS10665 (N4R43_10680) - 2117569..2117769 (-) 201 WP_058207039.1 hypothetical protein -
  N4R43_RS10670 (N4R43_10685) - 2117876..2118310 (+) 435 WP_029343738.1 hypothetical protein -
  N4R43_RS10675 (N4R43_10690) - 2118300..2118452 (-) 153 WP_161935097.1 hypothetical protein -
  N4R43_RS10680 (N4R43_10695) - 2118609..2118845 (-) 237 WP_011834775.1 helix-turn-helix domain-containing protein -
  N4R43_RS10685 (N4R43_10700) - 2118858..2119583 (-) 726 WP_058207038.1 ORF6C domain-containing protein -
  N4R43_RS10690 (N4R43_10705) - 2119593..2119811 (-) 219 WP_058207037.1 hypothetical protein -
  N4R43_RS10695 (N4R43_10710) - 2119826..2120074 (-) 249 WP_058207036.1 helix-turn-helix transcriptional regulator -
  N4R43_RS10700 (N4R43_10715) - 2120206..2120460 (+) 255 WP_058207035.1 DUF2513 domain-containing protein -
  N4R43_RS10705 (N4R43_10720) - 2120457..2120660 (-) 204 WP_017865020.1 hypothetical protein -
  N4R43_RS10710 (N4R43_10725) - 2120812..2121492 (+) 681 WP_058207034.1 hypothetical protein -
  N4R43_RS10715 (N4R43_10730) - 2121766..2122251 (+) 486 WP_058207033.1 helix-turn-helix domain-containing protein -
  N4R43_RS10720 (N4R43_10735) - 2122262..2122849 (+) 588 WP_058207032.1 hypothetical protein -
  N4R43_RS10725 (N4R43_10740) - 2122907..2123488 (+) 582 WP_058207031.1 hypothetical protein -
  N4R43_RS10730 (N4R43_10745) - 2123609..2124742 (+) 1134 WP_058207030.1 site-specific integrase -

Sequence

Protein


Download         Length: 141 a.a.        Molecular weight: 15686.40 Da        Isoelectric Point: 5.1972

>NTDB_id=729345 N4R43_RS10650 WP_058207042.1 2115890..2116315(-) (ssb) [Lactococcus lactis strain LJL7m20]
MINNVTLAGRITKEPELRYTQQNKAVATFTLAVNRAFKNANGEREADFINCVIWGKSAENLANWTHKGQLIGVIGSIQTR
NYENQQGQRVYVTEVIANNFQVLEKSNQANGERVGNPAAKPQNNDSFGSDPMEISDDDLPF

Nucleotide


Download         Length: 426 bp        

>NTDB_id=729345 N4R43_RS10650 WP_058207042.1 2115890..2116315(-) (ssb) [Lactococcus lactis strain LJL7m20]
ATGATTAATAATGTCACATTAGCAGGGCGGATCACTAAAGAACCTGAACTTAGATATACACAACAAAATAAAGCAGTTGC
CACTTTTACTCTTGCAGTTAATCGAGCATTTAAAAATGCTAATGGAGAAAGAGAAGCTGACTTTATCAATTGTGTTATTT
GGGGTAAATCAGCTGAAAACTTGGCCAATTGGACTCATAAAGGTCAGTTAATCGGAGTTATTGGTAGTATTCAAACTCGA
AACTACGAGAACCAACAAGGTCAACGAGTTTATGTAACAGAAGTCATTGCAAACAATTTTCAAGTACTTGAAAAAAGCAA
TCAAGCAAATGGTGAACGAGTTGGTAATCCAGCTGCAAAACCACAAAATAACGATTCTTTTGGAAGTGATCCAATGGAAA
TTTCAGATGATGACCTACCATTTTAA

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

54.118

100

0.652
  ssbA Bacillus subtilis subsp. subtilis str. 168

51.744

100

0.631
  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

57.692

73.759

0.426
  ssbA Streptococcus mutans UA159

39.716

100

0.397
  ssbB Lactococcus lactis subsp. cremoris KW2

49.515

73.05

0.362