Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   ABQ274_RS09935 Genome accession   NZ_CP159281
Coordinates   1988871..1989371 (+) Length   166 a.a.
NCBI ID   WP_003131953.1    Uniprot ID   -
Organism   Lactococcus lactis strain FNZ339     
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 1961923..1991145 1988871..1989371 within 0


Gene organization within MGE regions


Location: 1961923..1991145
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABQ274_RS09740 (ABQ274_09740) - 1961923..1962246 (-) 324 WP_058223693.1 sigma factor-like helix-turn-helix DNA-binding protein -
  ABQ274_RS09745 (ABQ274_09745) - 1962349..1962681 (-) 333 WP_058223694.1 hypothetical protein -
  ABQ274_RS09750 (ABQ274_09750) - 1962825..1963127 (-) 303 WP_058223695.1 hypothetical protein -
  ABQ274_RS09755 (ABQ274_09755) - 1963588..1964169 (-) 582 WP_270250288.1 hypothetical protein -
  ABQ274_RS09760 (ABQ274_09760) - 1964398..1966032 (-) 1635 WP_058223895.1 phage/plasmid primase, P4 family -
  ABQ274_RS09765 (ABQ274_09765) - 1966043..1966837 (-) 795 WP_058223894.1 bifunctional DNA primase/polymerase -
  ABQ274_RS09770 (ABQ274_09770) - 1966946..1967275 (-) 330 WP_058223893.1 hypothetical protein -
  ABQ274_RS09775 (ABQ274_09775) - 1967262..1967456 (-) 195 WP_023188953.1 hypothetical protein -
  ABQ274_RS09780 (ABQ274_09780) - 1967704..1967943 (-) 240 WP_353726869.1 hypothetical protein -
  ABQ274_RS09785 (ABQ274_09785) - 1967986..1968264 (-) 279 WP_058223890.1 hypothetical protein -
  ABQ274_RS09790 (ABQ274_09790) - 1968261..1968479 (-) 219 WP_058223889.1 hypothetical protein -
  ABQ274_RS09795 (ABQ274_09795) - 1968476..1969000 (-) 525 WP_058223888.1 hypothetical protein -
  ABQ274_RS09800 (ABQ274_09800) - 1969401..1969589 (-) 189 WP_058223896.1 helix-turn-helix transcriptional regulator -
  ABQ274_RS09805 (ABQ274_09805) - 1969668..1970285 (+) 618 WP_058223887.1 hypothetical protein -
  ABQ274_RS09810 (ABQ274_09810) - 1970287..1970418 (-) 132 WP_268766111.1 hypothetical protein -
  ABQ274_RS09815 (ABQ274_09815) - 1970447..1970695 (-) 249 WP_058223886.1 hypothetical protein -
  ABQ274_RS09820 (ABQ274_09820) - 1970699..1970896 (-) 198 WP_058223885.1 hypothetical protein -
  ABQ274_RS09825 (ABQ274_09825) - 1971155..1971541 (+) 387 WP_058223884.1 helix-turn-helix transcriptional regulator -
  ABQ274_RS09830 (ABQ274_09830) - 1971551..1972105 (+) 555 WP_058223883.1 hypothetical protein -
  ABQ274_RS09835 (ABQ274_09835) - 1972117..1972329 (+) 213 WP_058212807.1 hypothetical protein -
  ABQ274_RS09840 (ABQ274_09840) - 1972581..1972844 (+) 264 WP_235589807.1 potassium channel family protein -
  ABQ274_RS09845 (ABQ274_09845) - 1973112..1973321 (+) 210 WP_032944136.1 hypothetical protein -
  ABQ274_RS09850 (ABQ274_09850) - 1973388..1974050 (+) 663 WP_021212115.1 GIY-YIG nuclease family protein -
  ABQ274_RS09855 (ABQ274_09855) - 1974101..1974493 (+) 393 WP_023190162.1 tautomerase family protein -
  ABQ274_RS09860 (ABQ274_09860) - 1974629..1975654 (+) 1026 WP_058223881.1 DUF6287 domain-containing protein -
  ABQ274_RS09865 (ABQ274_09865) - 1975917..1976861 (+) 945 WP_058223880.1 Abi family protein -
  ABQ274_RS09870 (ABQ274_09870) - 1978118..1978441 (+) 324 WP_058223674.1 hypothetical protein -
  ABQ274_RS09875 (ABQ274_09875) - 1978720..1979061 (+) 342 WP_058223675.1 hypothetical protein -
  ABQ274_RS09880 (ABQ274_09880) - 1979395..1979559 (+) 165 WP_058218268.1 hypothetical protein -
  ABQ274_RS09885 (ABQ274_09885) - 1979681..1979986 (+) 306 WP_058223676.1 bacteriocin immunity protein -
  ABQ274_RS09890 (ABQ274_09890) - 1980246..1981430 (+) 1185 WP_058223677.1 site-specific integrase -
  ABQ274_RS09895 (ABQ274_09895) - 1981720..1982166 (+) 447 WP_003131961.1 hypothetical protein -
  ABQ274_RS09900 (ABQ274_09900) - 1982255..1982527 (-) 273 WP_010906376.1 chorismate mutase -
  ABQ274_RS09905 (ABQ274_09905) - 1982611..1983099 (+) 489 WP_003131959.1 GAF domain-containing protein -
  ABQ274_RS09910 (ABQ274_09910) - 1983131..1983772 (+) 642 WP_010906375.1 phosphotransferase -
  ABQ274_RS09915 (ABQ274_09915) dnaX 1983821..1985479 (+) 1659 WP_023164682.1 DNA polymerase III subunit gamma/tau -
  ABQ274_RS09920 (ABQ274_09920) - 1985514..1986980 (-) 1467 WP_023164681.1 amino acid permease -
  ABQ274_RS09925 (ABQ274_09925) - 1987502..1988356 (+) 855 WP_010906372.1 undecaprenyl-diphosphate phosphatase -
  ABQ274_RS09930 (ABQ274_09930) rpsF 1988548..1988841 (+) 294 WP_003131954.1 30S ribosomal protein S6 -
  ABQ274_RS09935 (ABQ274_09935) ssb 1988871..1989371 (+) 501 WP_003131953.1 single-stranded DNA-binding protein Machinery gene
  ABQ274_RS09940 (ABQ274_09940) rpsR 1989545..1989790 (+) 246 WP_003131952.1 30S ribosomal protein S18 -
  ABQ274_RS09945 (ABQ274_09945) - 1989990..1990763 (+) 774 WP_023164679.1 metallophosphoesterase -
  ABQ274_RS09950 (ABQ274_09950) - 1990837..1991145 (-) 309 WP_023164678.1 DUF960 domain-containing protein -

Sequence

Protein


Download         Length: 166 a.a.        Molecular weight: 18304.13 Da        Isoelectric Point: 5.2279

>NTDB_id=1013063 ABQ274_RS09935 WP_003131953.1 1988871..1989371(+) (ssb) [Lactococcus lactis strain FNZ339]
MINNVVLVGRITRDPELRYTPQNQAVATFSLAVNRQFKNANGEREADFINCVIWRQQAENLANWAKKGALIGVTGRIQTR
NYENQQGQRVYVTEVVADSFQMLESRSAREGMGGGTSAGSYSAPSQSTNNTPRPQTNNNNATPNFGRDADPFGSSPMEIS
DDDLPF

Nucleotide


Download         Length: 501 bp        

>NTDB_id=1013063 ABQ274_RS09935 WP_003131953.1 1988871..1989371(+) (ssb) [Lactococcus lactis strain FNZ339]
ATGATTAACAATGTTGTATTAGTAGGACGCATTACTCGCGATCCTGAACTTCGATACACCCCTCAAAATCAAGCTGTCGC
AACATTTTCATTGGCTGTAAACCGTCAATTTAAAAATGCGAATGGCGAACGTGAGGCTGATTTCATTAACTGCGTTATTT
GGCGCCAACAAGCTGAGAATTTGGCGAATTGGGCTAAAAAAGGAGCTTTGATTGGGGTAACTGGTCGAATTCAAACACGT
AACTATGAAAATCAACAAGGTCAACGCGTTTATGTGACTGAGGTTGTGGCTGACAGTTTCCAAATGTTGGAAAGTAGATC
TGCTCGTGAAGGTATGGGAGGCGGAACTTCTGCTGGTTCATATTCTGCACCTAGCCAATCTACAAATAATACTCCACGTC
CACAAACGAATAACAATAATGCAACACCGAATTTCGGTCGTGATGCTGATCCGTTTGGTAGCTCACCGATGGAAATTTCG
GATGATGACCTTCCATTCTAA

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

60.465

100

0.627
  ssbA Bacillus subtilis subsp. subtilis str. 168

57.803

100

0.602
  ssbB Bacillus subtilis subsp. subtilis str. 168

58.491

63.855

0.373
  ssb Glaesserella parasuis strain SC1401

35.028

100

0.373

Multiple sequence alignment