Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssbA   Type   Machinery gene
Locus tag   TOCE_RS02070 Genome accession   NC_014377
Coordinates   404572..404901 (+) Length   109 a.a.
NCBI ID   WP_083768454.1    Uniprot ID   -
Organism   Thermosediminibacter oceani DSM 16646     
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 400142..416002 404572..404901 within 0


Gene organization within MGE regions


Location: 400142..416002
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  TOCE_RS02045 (Toce_0399) - 402075..402527 (-) 453 WP_013275229.1 ImmA/IrrE family metallo-endopeptidase -
  TOCE_RS02050 (Toce_0400) - 402541..402948 (-) 408 WP_013275230.1 helix-turn-helix transcriptional regulator -
  TOCE_RS02055 (Toce_0401) - 403088..403300 (+) 213 WP_013275231.1 helix-turn-helix transcriptional regulator -
  TOCE_RS02060 (Toce_0402) - 403315..403497 (+) 183 WP_013275232.1 hypothetical protein -
  TOCE_RS12240 (Toce_0403) - 403592..403756 (+) 165 WP_013275233.1 hypothetical protein -
  TOCE_RS02065 (Toce_0404) - 403949..404479 (+) 531 WP_013275234.1 sigma factor-like helix-turn-helix DNA-binding protein -
  TOCE_RS02070 ssbA 404572..404901 (+) 330 WP_083768454.1 single-stranded DNA-binding protein Machinery gene
  TOCE_RS12045 - 405027..405395 (-) 369 WP_187286581.1 hypothetical protein -
  TOCE_RS12050 - 405411..406064 (+) 654 WP_148218364.1 hypothetical protein -
  TOCE_RS12385 (Toce_0406) - 406066..407133 (+) 1068 WP_223156831.1 helix-turn-helix domain-containing protein -
  TOCE_RS02090 (Toce_0407) - 407018..407746 (+) 729 WP_013275236.1 AAA family ATPase -
  TOCE_RS02095 (Toce_0408) - 407783..409006 (-) 1224 WP_013275237.1 IS110 family transposase -
  TOCE_RS02100 (Toce_0409) - 409323..410477 (+) 1155 WP_013275238.1 ATPase, T2SS/T4P/T4SS family -
  TOCE_RS02105 (Toce_0410) - 410465..411367 (+) 903 WP_013275239.1 hypothetical protein -
  TOCE_RS02110 (Toce_0411) - 411377..412201 (+) 825 WP_013275240.1 type II secretion system F family protein -
  TOCE_RS02115 (Toce_0412) - 412216..412419 (+) 204 WP_013275241.1 hypothetical protein -
  TOCE_RS02120 (Toce_0413) - 412463..412888 (+) 426 WP_013275242.1 hypothetical protein -
  TOCE_RS02125 (Toce_0414) - 412878..413384 (+) 507 WP_187286582.1 hypothetical protein -
  TOCE_RS02130 (Toce_0415) cpaB 413388..414032 (+) 645 WP_013275244.1 Flp pilus assembly protein CpaB -
  TOCE_RS02135 (Toce_0416) - 414100..414543 (+) 444 WP_013275245.1 DUF488 domain-containing protein -
  TOCE_RS02140 (Toce_0417) - 414554..415336 (+) 783 WP_013275246.1 hypothetical protein -
  TOCE_RS02145 (Toce_0418) - 415793..416002 (+) 210 WP_013275247.1 hypothetical protein -

Sequence

Protein


Download         Length: 109 a.a.        Molecular weight: 12431.18 Da        Isoelectric Point: 9.3312

>NTDB_id=37994 TOCE_RS02070 WP_083768454.1 404572..404901(+) (ssbA) [Thermosediminibacter oceani DSM 16646]
MNNVTLVGRLTRDPELRKAGDVPVCSFTLAVDRDFLNGEGERETDFIPVVTWRKLAETCANNLKKGRLVGVTGRIQVRQW
EQEGKKRREMEVVADSVRFLDRGKKDEGQ

Nucleotide


Download         Length: 330 bp        

>NTDB_id=37994 TOCE_RS02070 WP_083768454.1 404572..404901(+) (ssbA) [Thermosediminibacter oceani DSM 16646]
ATCAACAACGTAACTCTTGTCGGCAGGCTCACCAGGGATCCAGAGCTCCGGAAGGCTGGCGATGTTCCTGTATGCTCCTT
CACCCTGGCGGTGGACAGGGATTTCCTGAACGGCGAAGGCGAGCGGGAGACTGATTTTATACCCGTTGTGACGTGGAGGA
AGCTGGCGGAGACCTGCGCCAATAACCTCAAGAAGGGCCGACTGGTGGGTGTGACGGGCAGGATCCAGGTCCGGCAATGG
GAGCAAGAGGGTAAAAAACGTCGGGAAATGGAAGTAGTTGCGGACAGCGTGAGGTTTCTGGACAGGGGTAAAAAAGATGA
AGGGCAGTAG

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(1-100)


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
  ssbA Bacillus subtilis subsp. subtilis str. 168

56.311

94.495

0.532
  ssb Latilactobacillus sakei subsp. sakei 23K

50.485

94.495

0.477
  ssbB Bacillus subtilis subsp. subtilis str. 168

50.485

94.495

0.477
  ssbB Streptococcus sobrinus strain NIDR 6715-7

41.176

93.578

0.385
  ssbB/cilA Streptococcus pneumoniae TIGR4

40.594

92.661

0.376
  ssbB/cilA Streptococcus mitis SK321

40.594

92.661

0.376
  ssbB Lactococcus lactis subsp. cremoris KW2

38.835

94.495

0.367
  ssbB/cilA Streptococcus mitis NCTC 12261

39.604

92.661

0.367
  ssbB/cilA Streptococcus pneumoniae Rx1

39.604

92.661

0.367
  ssbB/cilA Streptococcus pneumoniae D39

39.604

92.661

0.367
  ssbB/cilA Streptococcus pneumoniae R6

39.604

92.661

0.367
  ssbA Streptococcus mutans UA159

39.604

92.661

0.367
  ssb Neisseria gonorrhoeae MS11

38.095

96.33

0.367

Multiple sequence alignment