Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   L3107_RS08235 Genome accession   NZ_CP031538
Coordinates   1620076..1620501 (-) Length   141 a.a.
NCBI ID   WP_021214223.1    Uniprot ID   -
Organism   Lactococcus cremoris strain 3107     
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 1610756..1626745 1620076..1620501 within 0


Gene organization within MGE regions


Location: 1610756..1626745
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L3107_RS08160 (L3107_1596) - 1610756..1611061 (-) 306 WP_011834820.1 bacteriocin immunity protein -
  L3107_RS08165 (L3107_1597) - 1611066..1611290 (-) 225 WP_021165549.1 garvicin Q family class II bacteriocin -
  L3107_RS08170 (L3107_1598) - 1611515..1612405 (+) 891 WP_081146268.1 IS982 family transposase -
  L3107_RS08175 (L3107_1599) - 1612387..1612587 (-) 201 WP_011676499.1 hypothetical protein -
  L3107_RS13965 - 1613420..1613590 (-) 171 WP_167594928.1 bacteriophage holin -
  L3107_RS08190 (L3107_1600) - 1613815..1615104 (-) 1290 WP_064305201.1 LysM peptidoglycan-binding domain-containing protein -
  L3107_RS08195 (L3107_1601) - 1615101..1615295 (-) 195 WP_231108255.1 phage holin -
  L3107_RS08200 (L3107_1602) istA 1615363..1616586 (+) 1224 WP_064305106.1 IS21-like element IS712 family transposase -
  L3107_RS08205 (L3107_1603) istB 1616598..1617356 (+) 759 WP_003331414.1 IS21-like element IS712 family helper ATPase IstB -
  L3107_RS08210 (L3107_1604) - 1617480..1617659 (-) 180 WP_021165553.1 DUF1031 family protein -
  L3107_RS08215 (L3107_1605) - 1617660..1618079 (-) 420 WP_021165554.1 hypothetical protein -
  L3107_RS08220 (L3107_1606) - 1618069..1618233 (-) 165 WP_021165555.1 hypothetical protein -
  L3107_RS08225 (L3107_1607) - 1618242..1619132 (-) 891 WP_021165556.1 ATP-binding protein -
  L3107_RS08230 (L3107_1608) - 1619142..1619948 (-) 807 WP_021165557.1 phage replisome organizer N-terminal domain-containing protein -
  L3107_RS08235 (L3107_1609) ssb 1620076..1620501 (-) 426 WP_021214223.1 single-stranded DNA-binding protein Machinery gene
  L3107_RS08240 (L3107_1610) - 1620494..1621252 (-) 759 WP_064305202.1 Rad52/Rad22 family DNA repair protein -
  L3107_RS08245 (L3107_1611) - 1621261..1621659 (-) 399 WP_064305203.1 hypothetical protein -
  L3107_RS08250 (L3107_1612) - 1621757..1621993 (-) 237 WP_021165561.1 DUF1408 domain-containing protein -
  L3107_RS08255 (L3107_1613) - 1622096..1622374 (+) 279 WP_011834777.1 hypothetical protein -
  L3107_RS08260 (L3107_1614) - 1622329..1622562 (-) 234 WP_011834776.1 hypothetical protein -
  L3107_RS08265 (L3107_1615) - 1622716..1622952 (-) 237 WP_011834775.1 helix-turn-helix domain-containing protein -
  L3107_RS08270 (L3107_1616) - 1622965..1623690 (-) 726 WP_021165562.1 ORF6C domain-containing protein -
  L3107_RS08275 (L3107_1617) - 1623704..1623943 (-) 240 WP_021165563.1 helix-turn-helix transcriptional regulator -
  L3107_RS08280 (L3107_1618) - 1624284..1624487 (-) 204 WP_021165564.1 putative transcriptional regulator -
  L3107_RS08285 (L3107_1619) - 1624750..1625562 (+) 813 WP_021165565.1 S24 family peptidase -
  L3107_RS08290 (L3107_1620) - 1625612..1626745 (+) 1134 WP_021165566.1 site-specific integrase -

Sequence

Protein


Download         Length: 141 a.a.        Molecular weight: 15725.44 Da        Isoelectric Point: 5.1972

>NTDB_id=307356 L3107_RS08235 WP_021214223.1 1620076..1620501(-) (ssb) [Lactococcus cremoris strain 3107]
MINNVTLVGRITKEPELRYTPQNKAVAAFTLAVNRAFKNANGEREADFINCVIWGKSAENLANWTHKGQLIGVTGSIQTR
NYENQQGQRVYVTEVIANNFQVLEKSNQANNERVGNPAAKPQNNDSFGNDPMEISDDDLPF

Nucleotide


Download         Length: 426 bp        

>NTDB_id=307356 L3107_RS08235 WP_021214223.1 1620076..1620501(-) (ssb) [Lactococcus cremoris strain 3107]
ATGATTAACAATGTCACTCTAGTAGGGCGAATCACTAAAGAACCTGAACTTAGATATACACCACAAAATAAAGCAGTTGC
CGCTTTTACTCTTGCAGTTAATCGAGCATTTAAAAATGCTAATGGAGAAAGAGAAGCTGACTTTATCAATTGTGTTATTT
GGGGTAAATCAGCCGAAAACTTGGCCAATTGGACTCATAAAGGTCAATTAATCGGAGTTACTGGTAGTATTCAAACTCGA
AACTACGAGAACCAACAAGGTCAACGAGTTTATGTAACAGAAGTCATTGCAAACAATTTCCAAGTACTAGAAAAAAGTAA
CCAAGCAAATAATGAACGAGTTGGTAATCCAGCTGCAAAACCACAAAATAACGATTCTTTTGGAAATGATCCAATGGAAA
TTTCGGATGATGACCTACCATTCTAA

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

52.907

100

0.645
  ssbB/cilA Streptococcus pneumoniae TIGR4

44.681

100

0.447
  ssbB Streptococcus sobrinus strain NIDR 6715-7

44.681

100

0.447
  ssbB/cilA Streptococcus mitis NCTC 12261

44.681

100

0.447
  ssbB/cilA Streptococcus pneumoniae Rx1

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

40.426

100

0.404
  ssbB Lactococcus lactis subsp. cremoris KW2

49.515

73.05

0.362

Multiple sequence alignment