Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HN015_RS04545 Genome accession   NZ_CP053421
Coordinates   924495..924971 (+) Length   158 a.a.
NCBI ID   WP_008840867.1    Uniprot ID   A0AAW8YED4
Organism   Pediococcus acidilactici strain PMC65     
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 913061..930807 924495..924971 within 0


Gene organization within MGE regions


Location: 913061..930807
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HN015_RS04425 (HN015_04440) - 913061..914236 (-) 1176 WP_166481432.1 tyrosine-type recombinase/integrase -
  HN015_RS04430 (HN015_04445) - 914324..914593 (-) 270 WP_008842114.1 hypothetical protein -
  HN015_RS04435 (HN015_04450) - 914675..915202 (-) 528 WP_008842113.1 PIN domain-containing protein -
  HN015_RS04440 (HN015_04455) - 915195..915530 (-) 336 WP_166481433.1 STAS-like domain-containing protein -
  HN015_RS04445 (HN015_04460) - 915560..916456 (-) 897 WP_166481434.1 hypothetical protein -
  HN015_RS04450 (HN015_04465) - 916535..917299 (-) 765 WP_008840851.1 DUF4352 domain-containing protein -
  HN015_RS04455 (HN015_04470) - 917368..917775 (-) 408 WP_036685006.1 ImmA/IrrE family metallo-endopeptidase -
  HN015_RS04460 (HN015_04475) - 917787..918149 (-) 363 WP_008840853.1 helix-turn-helix domain-containing protein -
  HN015_RS04465 (HN015_04480) - 918292..918522 (+) 231 WP_008840854.1 helix-turn-helix transcriptional regulator -
  HN015_RS04470 (HN015_04485) - 918519..918656 (+) 138 WP_008840855.1 hypothetical protein -
  HN015_RS04475 (HN015_04490) - 918688..919056 (+) 369 WP_036685008.1 hypothetical protein -
  HN015_RS04480 (HN015_04495) - 919048..919245 (-) 198 WP_166481435.1 hypothetical protein -
  HN015_RS04485 (HN015_04500) - 919314..919529 (+) 216 WP_036685013.1 hypothetical protein -
  HN015_RS04490 (HN015_04505) - 919614..920078 (+) 465 WP_232623517.1 helix-turn-helix domain-containing protein -
  HN015_RS04495 (HN015_04510) - 920079..920360 (+) 282 WP_008840858.1 hypothetical protein -
  HN015_RS04500 (HN015_04515) - 920362..920505 (+) 144 WP_158002712.1 hypothetical protein -
  HN015_RS04505 (HN015_04520) - 920598..920843 (+) 246 WP_008840859.1 hypothetical protein -
  HN015_RS04510 (HN015_04525) bet 920836..921633 (+) 798 WP_008840860.1 phage recombination protein Bet -
  HN015_RS04515 (HN015_04530) - 921542..922423 (+) 882 WP_052017552.1 PD-(D/E)XK nuclease-like domain-containing protein -
  HN015_RS04520 (HN015_04535) - 922435..922899 (+) 465 WP_008840862.1 hypothetical protein -
  HN015_RS04525 (HN015_04540) - 922926..923609 (+) 684 WP_008840863.1 putative HNHc nuclease -
  HN015_RS04530 (HN015_04545) - 923593..924000 (+) 408 WP_036685016.1 hypothetical protein -
  HN015_RS04535 (HN015_04550) - 924021..924251 (+) 231 WP_008840865.1 helix-turn-helix domain-containing protein -
  HN015_RS04540 (HN015_04555) - 924266..924502 (+) 237 WP_052017553.1 hypothetical protein -
  HN015_RS04545 (HN015_04560) ssb 924495..924971 (+) 477 WP_008840867.1 single-stranded DNA-binding protein Machinery gene
  HN015_RS04550 (HN015_04565) - 924983..925288 (+) 306 WP_036685019.1 helix-turn-helix domain-containing protein -
  HN015_RS04555 (HN015_04570) - 925402..925638 (+) 237 WP_036685021.1 hypothetical protein -
  HN015_RS04560 (HN015_04575) - 925631..925867 (+) 237 WP_008840869.1 hypothetical protein -
  HN015_RS04570 (HN015_04585) - 926800..927615 (+) 816 WP_008840871.1 abortive infection family protein -
  HN015_RS04575 (HN015_04590) - 927748..928575 (+) 828 WP_036685027.1 hypothetical protein -
  HN015_RS10075 - 928628..928975 (+) 348 WP_052017554.1 helix-turn-helix domain-containing protein -
  HN015_RS10080 - 928989..929300 (+) 312 WP_008840873.1 hypothetical protein -
  HN015_RS04585 (HN015_04600) - 929297..930595 (+) 1299 WP_166481436.1 PBSX family phage terminase large subunit -

Sequence

Protein


Download         Length: 158 a.a.        Molecular weight: 17648.30 Da        Isoelectric Point: 4.5762

>NTDB_id=444865 HN015_RS04545 WP_008840867.1 924495..924971(+) (ssb) [Pediococcus acidilactici strain PMC65]
MINRAVLIGRLTRDPELKYTTNGVAVASFNLAVNRQFTNQDGEREADFINCVMWRKAAEIFCDYTHKGSLVGIDGRIQTR
SYENQQGQRVYVTEVVADNFSFLESKSQSNQNNGSYVPQDNGFGQNNGPTTPNNTNPNDPFSGKQGQSIDITDEDLPF

Nucleotide


Download         Length: 477 bp        

>NTDB_id=444865 HN015_RS04545 WP_008840867.1 924495..924971(+) (ssb) [Pediococcus acidilactici strain PMC65]
ATGATTAACCGAGCGGTATTAATCGGGCGCTTAACAAGGGACCCAGAACTAAAGTACACAACCAATGGCGTAGCGGTCGC
TAGCTTTAACCTAGCAGTCAATCGCCAATTCACAAACCAAGATGGCGAACGTGAAGCAGATTTTATCAATTGCGTAATGT
GGCGGAAAGCGGCAGAAATTTTCTGCGACTATACTCACAAAGGTTCGTTGGTTGGCATTGATGGACGAATCCAAACTCGT
TCATACGAAAATCAACAAGGACAACGTGTTTATGTCACTGAAGTGGTCGCGGATAACTTTTCCTTTTTGGAATCTAAAAG
TCAGAGCAATCAAAACAATGGCAGTTATGTGCCACAAGACAACGGGTTTGGTCAAAATAATGGGCCAACTACGCCGAATA
ACACGAACCCAAATGATCCGTTTAGCGGAAAGCAAGGACAATCCATTGATATCACCGATGAAGATTTACCGTTCTAG

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

57.895

100

0.627
  ssbA Bacillus subtilis subsp. subtilis str. 168

55.491

100

0.608
  ssbB Bacillus subtilis subsp. subtilis str. 168

59.434

67.089

0.399
  ssbB Streptococcus sobrinus strain NIDR 6715-7

51.282

74.051

0.38