Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   VVB72_RS10150 Genome accession   NZ_CP142589
Coordinates   2041213..2041638 (-) Length   141 a.a.
NCBI ID   WP_039116136.1    Uniprot ID   -
Organism   Lactococcus lactis subsp. lactis strain C20     
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 2006525..2053841 2041213..2041638 within 0


Gene organization within MGE regions


Location: 2006525..2053841
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VVB72_RS09920 (VVB72_09920) pknB 2006525..2008408 (-) 1884 WP_327063072.1 Stk1 family PASTA domain-containing Ser/Thr kinase -
  VVB72_RS09925 (VVB72_09925) - 2008408..2009184 (-) 777 WP_039116084.1 Stp1/IreP family PP2C-type Ser/Thr phosphatase -
  VVB72_RS09930 (VVB72_09930) rsmB 2009265..2010539 (-) 1275 WP_014570715.1 16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB -
  VVB72_RS09940 (VVB72_09940) - 2011742..2012596 (-) 855 WP_039116086.1 GH25 family lysozyme -
  VVB72_RS09945 (VVB72_09945) - 2012598..2013050 (-) 453 WP_039116087.1 phage holin -
  VVB72_RS09950 (VVB72_09950) - 2013066..2013413 (-) 348 WP_011835796.1 hypothetical protein -
  VVB72_RS09955 (VVB72_09955) - 2013426..2013662 (-) 237 WP_039116726.1 hypothetical protein -
  VVB72_RS09960 (VVB72_09960) - 2013673..2017122 (-) 3450 WP_052230931.1 hypothetical protein -
  VVB72_RS09965 (VVB72_09965) - 2017122..2018648 (-) 1527 WP_155276109.1 distal tail protein Dit -
  VVB72_RS09970 (VVB72_09970) - 2018645..2022697 (-) 4053 WP_052230932.1 phage tail tape measure protein -
  VVB72_RS09975 (VVB72_09975) - 2022808..2023470 (-) 663 WP_230593116.1 DUF4352 domain-containing protein -
  VVB72_RS09980 (VVB72_09980) - 2023572..2023784 (-) 213 WP_039116089.1 hypothetical protein -
  VVB72_RS09985 (VVB72_09985) gpG 2023781..2024098 (-) 318 WP_270095133.1 phage tail assembly chaperone G -
  VVB72_RS09990 (VVB72_09990) - 2024102..2024701 (-) 600 WP_039116091.1 major tail protein -
  VVB72_RS09995 (VVB72_09995) - 2024720..2025109 (-) 390 WP_023189090.1 hypothetical protein -
  VVB72_RS10000 (VVB72_10000) - 2025106..2025510 (-) 405 WP_039116093.1 HK97 gp10 family phage protein -
  VVB72_RS10005 (VVB72_10005) - 2025503..2025889 (-) 387 WP_039116095.1 hypothetical protein -
  VVB72_RS10010 (VVB72_10010) - 2025886..2026188 (-) 303 WP_039116097.1 hypothetical protein -
  VVB72_RS10015 (VVB72_10015) - 2026201..2026356 (-) 156 WP_167593704.1 hypothetical protein -
  VVB72_RS10020 (VVB72_10020) - 2026367..2027512 (-) 1146 WP_039116099.1 phage major capsid protein -
  VVB72_RS10025 (VVB72_10025) - 2027512..2028330 (-) 819 WP_052230934.1 head maturation protease, ClpP-related -
  VVB72_RS10030 (VVB72_10030) - 2028317..2029510 (-) 1194 WP_039116101.1 phage portal protein -
  VVB72_RS10035 (VVB72_10035) - 2029793..2030443 (-) 651 WP_039116103.1 hypothetical protein -
  VVB72_RS10040 (VVB72_10040) - 2030520..2032259 (-) 1740 WP_039116105.1 terminase large subunit domain-containing protein -
  VVB72_RS10045 (VVB72_10045) - 2032256..2032900 (-) 645 WP_270095134.1 helix-turn-helix domain-containing protein -
  VVB72_RS10050 (VVB72_10050) - 2032991..2033290 (-) 300 WP_039116107.1 HNH endonuclease -
  VVB72_RS10055 (VVB72_10055) - 2033339..2033638 (-) 300 WP_039116109.1 hypothetical protein -
  VVB72_RS10060 (VVB72_10060) - 2033716..2033988 (-) 273 WP_039116111.1 hypothetical protein -
  VVB72_RS10065 (VVB72_10065) - 2034513..2034668 (+) 156 WP_014572174.1 hypothetical protein -
  VVB72_RS10070 (VVB72_10070) - 2034707..2034886 (-) 180 WP_039116113.1 DUF1660 domain-containing protein -
  VVB72_RS10075 (VVB72_10075) - 2034883..2035317 (-) 435 WP_039116115.1 DNA N-6-adenine-methyltransferase -
  VVB72_RS10080 (VVB72_10080) - 2035310..2035705 (-) 396 WP_039116116.1 hypothetical protein -
  VVB72_RS10085 (VVB72_10085) - 2035813..2036076 (-) 264 WP_080756669.1 hypothetical protein -
  VVB72_RS10090 (VVB72_10090) - 2036331..2036660 (-) 330 WP_039116117.1 hypothetical protein -
  VVB72_RS10095 (VVB72_10095) - 2036657..2037283 (-) 627 WP_039116118.1 DUF1642 domain-containing protein -
  VVB72_RS10100 (VVB72_10100) - 2037276..2037557 (-) 282 WP_039116119.1 hypothetical protein -
  VVB72_RS10105 (VVB72_10105) - 2037550..2037843 (-) 294 WP_155276110.1 hypothetical protein -
  VVB72_RS10110 (VVB72_10110) - 2037861..2038049 (-) 189 WP_039116120.1 hypothetical protein -
  VVB72_RS10115 (VVB72_10115) - 2038060..2038422 (-) 363 WP_039116122.1 DUF658 family protein -
  VVB72_RS10120 (VVB72_10120) - 2038397..2038561 (-) 165 WP_010905354.1 hypothetical protein -
  VVB72_RS10125 (VVB72_10125) - 2038669..2038908 (-) 240 WP_039116124.1 DUF1031 domain-containing protein -
  VVB72_RS10130 (VVB72_10130) - 2038905..2039279 (-) 375 WP_039116126.1 DUF1064 domain-containing protein -
  VVB72_RS10135 (VVB72_10135) - 2039260..2039433 (-) 174 WP_039116128.1 hypothetical protein -
  VVB72_RS10140 (VVB72_10140) - 2039442..2040332 (-) 891 WP_039116130.1 ATP-binding protein -
  VVB72_RS10145 (VVB72_10145) - 2040342..2041088 (-) 747 WP_039116133.1 conserved phage C-terminal domain-containing protein -
  VVB72_RS10150 (VVB72_10150) ssb 2041213..2041638 (-) 426 WP_039116136.1 single-stranded DNA-binding protein Machinery gene
  VVB72_RS10155 (VVB72_10155) - 2041631..2042389 (-) 759 WP_039116138.1 Rad52/Rad22 family DNA repair protein -
  VVB72_RS10160 (VVB72_10160) - 2042398..2042793 (-) 396 WP_039116139.1 hypothetical protein -
  VVB72_RS10165 (VVB72_10165) - 2042892..2043038 (-) 147 WP_021469336.1 hypothetical protein -
  VVB72_RS10170 (VVB72_10170) - 2043143..2043532 (+) 390 WP_039116140.1 hypothetical protein -
  VVB72_RS10175 (VVB72_10175) - 2043525..2043689 (-) 165 WP_155276111.1 hypothetical protein -
  VVB72_RS10180 (VVB72_10180) - 2043782..2044051 (-) 270 WP_021212293.1 hypothetical protein -
  VVB72_RS10185 (VVB72_10185) - 2044064..2044816 (-) 753 WP_039116143.1 phage antirepressor KilAC domain-containing protein -
  VVB72_RS10190 (VVB72_10190) - 2044828..2045076 (-) 249 WP_031559261.1 helix-turn-helix transcriptional regulator -
  VVB72_RS12140 - 2045209..2045346 (+) 138 WP_080756632.1 zinc ribbon-containing protein -
  VVB72_RS10195 (VVB72_10195) - 2045376..2045498 (-) 123 WP_258553365.1 hypothetical protein -
  VVB72_RS10200 (VVB72_10200) - 2045655..2046500 (+) 846 WP_039116146.1 Abi-alpha family protein -
  VVB72_RS10205 (VVB72_10205) - 2046912..2047478 (+) 567 WP_039116148.1 helix-turn-helix domain-containing protein -
  VVB72_RS10210 (VVB72_10210) - 2047484..2047918 (+) 435 WP_039116150.1 zinc peptidase -
  VVB72_RS10215 (VVB72_10215) - 2047932..2048267 (+) 336 WP_031559267.1 hypothetical protein -
  VVB72_RS10220 (VVB72_10220) - 2048334..2049515 (+) 1182 WP_031559268.1 tyrosine-type recombinase/integrase -
  VVB72_RS10225 (VVB72_10225) - 2049816..2050322 (-) 507 WP_012898444.1 Asp23/Gls24 family envelope stress response protein -
  VVB72_RS10230 (VVB72_10230) - 2050343..2050531 (-) 189 WP_012898445.1 DUF2273 domain-containing protein -
  VVB72_RS10235 (VVB72_10235) amaP 2050542..2051102 (-) 561 WP_010906186.1 alkaline shock response membrane anchor protein AmaP -
  VVB72_RS10240 (VVB72_10240) - 2051130..2051372 (-) 243 WP_003131476.1 GlsB/YeaQ/YmgE family stress response membrane protein -
  VVB72_RS10245 (VVB72_10245) fmt 2051547..2052506 (-) 960 WP_023189127.1 methionyl-tRNA formyltransferase -
  VVB72_RS10250 (VVB72_10250) - 2052503..2052967 (-) 465 WP_003131474.1 VOC family protein -
  VVB72_RS10255 (VVB72_10255) - 2052933..2053454 (-) 522 WP_023189128.1 NUDIX hydrolase -
  VVB72_RS10260 (VVB72_10260) - 2053467..2053841 (-) 375 WP_025017158.1 nuclear transport factor 2 family protein -

Sequence

Protein


Download         Length: 141 a.a.        Molecular weight: 15815.50 Da        Isoelectric Point: 5.1972

>NTDB_id=926085 VVB72_RS10150 WP_039116136.1 2041213..2041638(-) (ssb) [Lactococcus lactis subsp. lactis strain C20]
MINNVTLVGRITKEPELRYTQQNKAVASFTLAVNRQFKNSNGERETDFINCVIWGKSAENLANWTHKGQLIGVIGNIQTR
NYENQQGQRVYITEVVASNFQVLEKSNQANGERVSNPAAKPQNNDSFGSDPIEISDDDLPF

Nucleotide


Download         Length: 426 bp        

>NTDB_id=926085 VVB72_RS10150 WP_039116136.1 2041213..2041638(-) (ssb) [Lactococcus lactis subsp. lactis strain C20]
ATGATTAATAATGTCACTCTAGTAGGGCGAATCACTAAAGAACCTGAACTTAGATATACACAACAAAATAAAGCAGTTGC
TTCATTTACTCTTGCAGTTAATCGTCAATTTAAGAATTCCAATGGAGAAAGAGAAACTGACTTTATCAATTGTGTTATCT
GGGGTAAATCAGCCGAAAACTTGGCCAATTGGACTCATAAAGGTCAATTAATTGGAGTTATTGGGAATATCCAAACTCGA
AACTATGAGAACCAACAAGGGCAACGTGTTTATATTACGGAGGTTGTCGCAAGTAATTTCCAAGTACTAGAAAAAAGTAA
TCAAGCAAATGGTGAACGAGTTAGTAATCCAGCTGCAAAACCACAAAATAACGATTCTTTTGGAAGTGATCCAATAGAAA
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

51.163

100

0.624
  ssbB/cilA Streptococcus pneumoniae TIGR4

43.262

100

0.433
  ssbB/cilA Streptococcus mitis NCTC 12261

43.262

100

0.433
  ssbB/cilA Streptococcus pneumoniae Rx1

42.553

100

0.426
  ssbB Streptococcus sobrinus strain NIDR 6715-7

42.553

100

0.426
  ssbB/cilA Streptococcus pneumoniae D39

42.553

100

0.426
  ssbB/cilA Streptococcus pneumoniae R6

42.553

100

0.426
  ssbB/cilA Streptococcus mitis SK321

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