Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   HPB53_RS07140 Genome accession   NZ_CP053571
Coordinates   1511911..1512372 (+) Length   153 a.a.
NCBI ID   WP_171785848.1    Uniprot ID   -
Organism   Lactiplantibacillus plantarum strain CNEI-KCA4     
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 1502815..1542858 1511911..1512372 within 0


Gene organization within MGE regions


Location: 1502815..1542858
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPB53_RS07045 (HPB53_07050) - 1502815..1503951 (-) 1137 WP_171785837.1 site-specific integrase -
  HPB53_RS07055 (HPB53_07060) - 1504192..1504506 (-) 315 WP_033613717.1 hypothetical protein -
  HPB53_RS07060 (HPB53_07065) - 1504499..1504912 (-) 414 WP_033613719.1 hypothetical protein -
  HPB53_RS07070 (HPB53_07075) - 1505092..1505286 (-) 195 WP_128536997.1 hypothetical protein -
  HPB53_RS07080 (HPB53_07085) - 1505608..1506849 (-) 1242 WP_171785838.1 exonuclease domain-containing protein -
  HPB53_RS07085 (HPB53_07090) - 1506910..1507299 (-) 390 WP_003641360.1 ImmA/IrrE family metallo-endopeptidase -
  HPB53_RS07090 (HPB53_07095) - 1507330..1507656 (-) 327 WP_171785839.1 helix-turn-helix domain-containing protein -
  HPB53_RS07095 (HPB53_07100) - 1507914..1508129 (+) 216 WP_171785840.1 hypothetical protein -
  HPB53_RS07100 (HPB53_07105) - 1508212..1508949 (+) 738 WP_171785841.1 ORF6N domain-containing protein -
  HPB53_RS07105 (HPB53_07110) - 1509118..1509351 (-) 234 WP_171785842.1 hypothetical protein -
  HPB53_RS07110 (HPB53_07115) - 1509446..1509775 (+) 330 WP_171785843.1 DUF771 domain-containing protein -
  HPB53_RS07115 (HPB53_07120) - 1509864..1510103 (+) 240 WP_171785844.1 tagatose-bisphosphate aldolase -
  HPB53_RS07120 (HPB53_07125) - 1510115..1510279 (+) 165 WP_171785845.1 hypothetical protein -
  HPB53_RS07125 (HPB53_07130) - 1510282..1510428 (+) 147 WP_171785846.1 hypothetical protein -
  HPB53_RS07130 (HPB53_07135) - 1510428..1511288 (+) 861 WP_072566891.1 DUF1351 domain-containing protein -
  HPB53_RS07135 (HPB53_07140) - 1511288..1511914 (+) 627 WP_171785847.1 ERF family protein -
  HPB53_RS07140 (HPB53_07145) ssb 1511911..1512372 (+) 462 WP_171785848.1 single-stranded DNA-binding protein Machinery gene
  HPB53_RS07145 (HPB53_07150) - 1512387..1513079 (+) 693 WP_171785849.1 putative HNHc nuclease -
  HPB53_RS07150 (HPB53_07155) - 1513121..1513957 (+) 837 WP_171785850.1 helix-turn-helix domain-containing protein -
  HPB53_RS07155 (HPB53_07160) - 1513961..1514263 (+) 303 WP_171785851.1 hypothetical protein -
  HPB53_RS07160 (HPB53_07165) - 1514266..1514577 (+) 312 WP_171785852.1 hypothetical protein -
  HPB53_RS07165 (HPB53_07170) - 1514581..1514739 (+) 159 WP_171785853.1 hypothetical protein -
  HPB53_RS07175 (HPB53_07180) - 1514796..1515188 (+) 393 WP_171785854.1 YopX family protein -
  HPB53_RS07180 (HPB53_07185) - 1515547..1515972 (+) 426 WP_171785855.1 transcriptional regulator -
  HPB53_RS07185 (HPB53_07190) - 1516400..1517017 (+) 618 WP_122036804.1 DUF4145 domain-containing protein -
  HPB53_RS07190 (HPB53_07195) - 1517089..1517292 (+) 204 WP_122036803.1 hypothetical protein -
  HPB53_RS07195 (HPB53_07200) - 1517339..1517518 (+) 180 WP_122036802.1 hypothetical protein -
  HPB53_RS07200 (HPB53_07205) - 1517487..1517999 (+) 513 WP_122036801.1 HNH endonuclease -
  HPB53_RS07205 (HPB53_07210) - 1518220..1518681 (+) 462 WP_033608389.1 phage terminase small subunit P27 family -
  HPB53_RS07210 (HPB53_07215) - 1518662..1520575 (+) 1914 WP_262351053.1 terminase TerL endonuclease subunit -
  HPB53_RS07215 (HPB53_07220) - 1520565..1520759 (+) 195 WP_033608390.1 DUF1056 family protein -
  HPB53_RS07220 (HPB53_07225) - 1520762..1521958 (+) 1197 WP_033608391.1 phage portal protein -
  HPB53_RS07225 (HPB53_07230) - 1521936..1522709 (+) 774 WP_171785856.1 head maturation protease, ClpP-related -
  HPB53_RS07230 (HPB53_07235) - 1522709..1523941 (+) 1233 WP_114619779.1 phage major capsid protein -
  HPB53_RS07235 (HPB53_07240) - 1524014..1524352 (+) 339 WP_016058329.1 head-tail connector protein -
  HPB53_RS07240 (HPB53_07245) - 1524336..1524698 (+) 363 WP_021732004.1 phage head closure protein -
  HPB53_RS07245 (HPB53_07250) - 1524688..1525128 (+) 441 WP_021732003.1 hypothetical protein -
  HPB53_RS07250 (HPB53_07255) - 1525125..1525508 (+) 384 WP_022638398.1 DUF806 family protein -
  HPB53_RS07255 (HPB53_07260) - 1525509..1526147 (+) 639 WP_021732001.1 phage tail protein -
  HPB53_RS07260 (HPB53_07265) - 1526348..1526731 (+) 384 WP_016058334.1 hypothetical protein -
  HPB53_RS07265 (HPB53_07270) - 1526728..1526919 (+) 192 WP_016058335.1 hypothetical protein -
  HPB53_RS07270 (HPB53_07275) - 1526932..1531866 (+) 4935 WP_171785857.1 phage tail tip lysozyme -
  HPB53_RS07275 (HPB53_07280) - 1532007..1533716 (+) 1710 WP_316242703.1 phage tail domain-containing protein -
  HPB53_RS07280 (HPB53_07285) - 1533782..1536196 (+) 2415 WP_171785859.1 phage tail spike protein -
  HPB53_RS07285 (HPB53_07290) - 1536213..1538435 (+) 2223 WP_171785860.1 phage tail protein -
  HPB53_RS07290 (HPB53_07295) - 1538428..1538679 (+) 252 WP_171785861.1 hypothetical protein -
  HPB53_RS07295 (HPB53_07300) - 1538683..1538844 (+) 162 WP_171785862.1 hypothetical protein -
  HPB53_RS16025 - 1538828..1541524 (+) 2697 WP_262351055.1 SGNH/GDSL hydrolase family protein -
  HPB53_RS07305 (HPB53_07310) - 1541576..1542586 (+) 1011 Protein_1431 GH25 family lysozyme -
  HPB53_RS07310 (HPB53_07315) - 1542595..1542858 (+) 264 WP_003644510.1 hemolysin XhlA family protein -

Sequence

Protein


Download         Length: 153 a.a.        Molecular weight: 17277.73 Da        Isoelectric Point: 6.2148

>NTDB_id=445188 HPB53_RS07140 WP_171785848.1 1511911..1512372(+) (ssb) [Lactiplantibacillus plantarum strain CNEI-KCA4]
MINRSVLVGRLTRDPELRYTNGGAAVATFTIAVNRQFTNQNGEREADFINCVIWRKAAENFTNFTHKGSLIGIDGHIQTR
NYENQQGTHIYVTEVVVDNFSLLESRAESEHHQSANSNCHSSNNSNNRKYDNNQNQYGNNGGQIDITDNDLPF

Nucleotide


Download         Length: 462 bp        

>NTDB_id=445188 HPB53_RS07140 WP_171785848.1 1511911..1512372(+) (ssb) [Lactiplantibacillus plantarum strain CNEI-KCA4]
ATGATCAACCGAAGCGTTTTAGTTGGTAGGCTTACAAGAGACCCAGAATTACGTTATACGAATGGCGGTGCTGCGGTTGC
AACGTTCACGATTGCTGTAAATCGACAATTTACAAATCAGAACGGAGAACGTGAAGCTGATTTTATTAACTGCGTCATCT
GGCGGAAGGCTGCTGAAAATTTCACTAATTTCACACATAAAGGATCACTTATTGGAATTGATGGTCACATTCAAACGAGA
AACTATGAAAATCAGCAGGGAACTCATATTTACGTTACTGAAGTAGTCGTTGATAACTTCTCATTGCTTGAATCACGTGC
TGAATCTGAACATCATCAAAGTGCTAATAGTAATTGCCACAGCTCAAACAATAGCAATAATAGAAAATATGATAACAATC
AAAACCAGTATGGAAATAATGGCGGCCAGATTGATATCACGGACAATGACTTGCCGTTTTAA

Domains

Predicted by InterproScan.

Single-strand binding protein family (SSB)

(2-102)


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

62.353

100

0.693
  ssbA Bacillus subtilis subsp. subtilis str. 168

52.907

100

0.595
  ssbB Bacillus subtilis subsp. subtilis str. 168

55.66

69.281

0.386
  ssbB/cilA Streptococcus mitis NCTC 12261

53.704

70.588

0.379
  ssbB/cilA Streptococcus pneumoniae TIGR4

53.704

70.588

0.379
  ssbB/cilA Streptococcus pneumoniae Rx1

52.778

70.588

0.373
  ssbB/cilA Streptococcus pneumoniae D39

52.778

70.588

0.373
  ssbB/cilA Streptococcus pneumoniae R6

52.778

70.588

0.373
  ssbB/cilA Streptococcus mitis SK321

52.778

70.588

0.373