Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   QYM42_RS07990 Genome accession   NZ_CP129526
Coordinates   1631143..1631568 (-) Length   141 a.a.
NCBI ID   WP_195229129.1    Uniprot ID   -
Organism   Lactococcus lactis strain ZZ-2     
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 1619735..1646924 1631143..1631568 within 0


Gene organization within MGE regions


Location: 1619735..1646924
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QYM42_RS07895 (QYM42_07895) - 1619735..1620265 (-) 531 WP_075070535.1 hypothetical protein -
  QYM42_RS07900 (QYM42_07900) - 1620348..1621127 (-) 780 WP_251899735.1 peptidoglycan amidohydrolase family protein -
  QYM42_RS07905 (QYM42_07905) - 1621127..1621402 (-) 276 WP_058204825.1 holin -
  QYM42_RS07910 (QYM42_07910) - 1621415..1621636 (-) 222 WP_058204022.1 hemolysin XhlA family protein -
  QYM42_RS07915 (QYM42_07915) - 1621783..1622751 (-) 969 WP_251899736.1 pyocin knob domain-containing protein -
  QYM42_RS07920 (QYM42_07920) - 1622751..1622888 (-) 138 WP_195229120.1 hypothetical protein -
  QYM42_RS07925 (QYM42_07925) - 1623079..1623597 (-) 519 Protein_1539 phage tail protein -
  QYM42_RS07930 (QYM42_07930) - 1623596..1624186 (-) 591 Protein_1540 phage portal protein -
  QYM42_RS07935 (QYM42_07935) - 1624196..1625479 (-) 1284 WP_251899737.1 PBSX family phage terminase large subunit -
  QYM42_RS07940 (QYM42_07940) - 1625472..1625924 (-) 453 WP_251899738.1 terminase small subunit -
  QYM42_RS07945 (QYM42_07945) - 1626068..1626763 (-) 696 WP_139917178.1 M23 family metallopeptidase -
  QYM42_RS07950 (QYM42_07950) - 1627044..1627433 (-) 390 WP_139917180.1 DUF722 domain-containing protein -
  QYM42_RS07955 (QYM42_07955) - 1627550..1627819 (+) 270 WP_161935088.1 DUF3892 domain-containing protein -
  QYM42_RS07960 (QYM42_07960) - 1627940..1628095 (+) 156 WP_251899739.1 hypothetical protein -
  QYM42_RS07965 (QYM42_07965) - 1628315..1628701 (+) 387 WP_139917185.1 DUF805 domain-containing protein -
  QYM42_RS07970 (QYM42_07970) - 1628899..1629567 (+) 669 WP_139917187.1 type 1 glutamine amidotransferase -
  QYM42_RS07975 (QYM42_07975) - 1629669..1629890 (-) 222 WP_139917189.1 hypothetical protein -
  QYM42_RS07980 (QYM42_07980) - 1629871..1630674 (-) 804 WP_251899740.1 helix-turn-helix domain-containing protein -
  QYM42_RS07985 (QYM42_07985) - 1630688..1630999 (-) 312 WP_251899741.1 endonuclease -
  QYM42_RS07990 (QYM42_07990) ssb 1631143..1631568 (-) 426 WP_195229129.1 single-stranded DNA-binding protein Machinery gene
  QYM42_RS07995 (QYM42_07995) - 1631561..1632319 (-) 759 WP_251899742.1 Rad52/Rad22 family DNA repair protein -
  QYM42_RS08000 (QYM42_08000) - 1632328..1632723 (-) 396 WP_251899743.1 hypothetical protein -
  QYM42_RS08005 (QYM42_08005) - 1632824..1633060 (-) 237 WP_098384009.1 DUF1408 domain-containing protein -
  QYM42_RS08010 (QYM42_08010) - 1633156..1633380 (+) 225 WP_098384010.1 hypothetical protein -
  QYM42_RS08015 (QYM42_08015) - 1633611..1633949 (-) 339 WP_098397254.1 hypothetical protein -
  QYM42_RS08020 (QYM42_08020) - 1633963..1634757 (-) 795 WP_251899744.1 phage antirepressor KilAC domain-containing protein -
  QYM42_RS08025 (QYM42_08025) - 1634773..1635021 (-) 249 WP_251899745.1 helix-turn-helix transcriptional regulator -
  QYM42_RS08030 (QYM42_08030) - 1635177..1635923 (+) 747 WP_251899746.1 hypothetical protein -
  QYM42_RS08035 (QYM42_08035) - 1636177..1636701 (+) 525 WP_301675124.1 XRE family transcriptional regulator -
  QYM42_RS08040 (QYM42_08040) - 1636712..1637299 (+) 588 WP_251899747.1 hypothetical protein -
  QYM42_RS08045 (QYM42_08045) - 1637314..1637515 (+) 202 Protein_1563 hypothetical protein -
  QYM42_RS08050 (QYM42_08050) - 1637569..1638108 (+) 540 WP_139917215.1 PH domain-containing protein -
  QYM42_RS08055 (QYM42_08055) - 1638215..1638553 (+) 339 WP_103054941.1 DUF898 family protein -
  QYM42_RS08060 (QYM42_08060) - 1638657..1639148 (+) 492 WP_251899748.1 hypothetical protein -
  QYM42_RS08065 (QYM42_08065) - 1639251..1640027 (+) 777 WP_139917219.1 glycoside hydrolase, family 25 -
  QYM42_RS08070 (QYM42_08070) - 1640148..1640378 (+) 231 WP_251899749.1 hypothetical protein -
  QYM42_RS08075 (QYM42_08075) - 1640353..1641303 (+) 951 WP_251900446.1 site-specific integrase -
  QYM42_RS08080 (QYM42_08080) - 1641410..1642483 (-) 1074 WP_251899750.1 carbamoyl phosphate synthase small subunit -
  QYM42_RS08085 (QYM42_08085) - 1642546..1643478 (-) 933 WP_015426755.1 aspartate carbamoyltransferase catalytic subunit -
  QYM42_RS08090 (QYM42_08090) - 1643662..1644954 (-) 1293 WP_010906053.1 uracil-xanthine permease family protein -
  QYM42_RS08095 (QYM42_08095) pyrR 1645049..1645570 (-) 522 WP_010906054.1 bifunctional pyr operon transcriptional regulator/uracil phosphoribosyltransferase PyrR -
  QYM42_RS08100 (QYM42_08100) - 1645831..1646529 (-) 699 WP_003129391.1 M50 family metallopeptidase -
  QYM42_RS08105 (QYM42_08105) - 1646625..1646924 (+) 300 WP_058204854.1 metalloregulator ArsR/SmtB family transcription factor -

Sequence

Protein


Download         Length: 141 a.a.        Molecular weight: 15824.59 Da        Isoelectric Point: 5.1972

>NTDB_id=853935 QYM42_RS07990 WP_195229129.1 1631143..1631568(-) (ssb) [Lactococcus lactis strain ZZ-2]
MINNVTLVGRITKEPELRYTQQNKAVASFTLAVNRQFKNFNGEREADFINCVIWGKSAENLANWTHKGQLIGVTGSIQTR
NYENQQGQRVYIMEVVASNFQVLEKSNQANGERVGNPAAKPQNNDSFGSDPMEISDDDLPF

Nucleotide


Download         Length: 426 bp        

>NTDB_id=853935 QYM42_RS07990 WP_195229129.1 1631143..1631568(-) (ssb) [Lactococcus lactis strain ZZ-2]
ATGATTAACAATGTCACTCTAGTAGGGCGAATCACTAAGGAACCTGAACTTAGATATACACAACAAAATAAAGCAGTTGC
TTCATTTACTCTTGCAGTTAATCGTCAATTTAAGAATTTCAATGGAGAAAGAGAAGCTGACTTTATCAATTGTGTTATTT
GGGGTAAATCAGCCGAAAACTTGGCCAATTGGACTCATAAAGGTCAATTAATTGGAGTTACTGGTAGTATTCAAACTCGC
AACTATGAGAATCAACAAGGGCAACGAGTTTATATTATGGAGGTTGTCGCAAGTAATTTCCAAGTACTTGAAAAAAGTAA
TCAAGCAAATGGTGAACGAGTTGGTAATCCAGCTGCAAAACCACAAAATAATGATTCTTTTGGAAGTGATCCAATGGAAA
TTTCAGATGATGACCTACCATTTTAA

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

53.529

100

0.645
  ssbA Bacillus subtilis subsp. subtilis str. 168

50.581

100

0.617
  ssbB/cilA Streptococcus mitis SK321

43.262

100

0.433
  ssbB/cilA Streptococcus mitis NCTC 12261

43.262

100

0.433
  ssbB/cilA Streptococcus pneumoniae TIGR4

43.262

100

0.433
  ssbB/cilA Streptococcus pneumoniae D39

42.553

100

0.426
  ssbB/cilA Streptococcus pneumoniae Rx1

42.553

100

0.426
  ssbB/cilA Streptococcus pneumoniae R6

42.553

100

0.426
  ssbB Streptococcus sobrinus strain NIDR 6715-7

42.553

100

0.426
  ssbB Bacillus subtilis subsp. subtilis str. 168

55.769

73.759

0.411
  ssbA Streptococcus mutans UA159

38.298

100

0.383
  ssbB Lactococcus lactis subsp. cremoris KW2

49.515

73.05

0.362