Detailed information    

insolico Bioinformatically predicted

Overview

Name   ssb   Type   Machinery gene
Locus tag   EFV54_RS07585 Genome accession   NZ_CP033607
Coordinates   1449729..1450154 (-) Length   141 a.a.
NCBI ID   WP_010905962.1    Uniprot ID   -
Organism   Lactococcus lactis strain IL1403     
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 1414182..1458059 1449729..1450154 within 0


Gene organization within MGE regions


Location: 1414182..1458059
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EFV54_RS07335 (EFV54_07335) - 1414182..1414712 (-) 531 WP_010905913.1 hypothetical protein -
  EFV54_RS07355 (EFV54_07355) - 1416118..1416897 (-) 780 WP_010905917.1 peptidoglycan amidohydrolase family protein -
  EFV54_RS07360 (EFV54_07360) - 1416897..1417196 (-) 300 WP_010905918.1 phage holin -
  EFV54_RS07365 (EFV54_07365) - 1417222..1418784 (-) 1563 WP_010905919.1 BppU family phage baseplate upper protein -
  EFV54_RS07370 (EFV54_07370) - 1418796..1419020 (-) 225 WP_010905920.1 hemolysin XhlA family protein -
  EFV54_RS12620 (EFV54_07375) - 1419040..1421472 (-) 2433 WP_010905921.1 hypothetical protein -
  EFV54_RS07380 (EFV54_07380) - 1421450..1421623 (-) 174 WP_010905922.1 hypothetical protein -
  EFV54_RS07385 (EFV54_07385) - 1421623..1422744 (-) 1122 WP_123174250.1 hypothetical protein -
  EFV54_RS07390 (EFV54_07390) - 1422760..1424547 (-) 1788 WP_010905924.1 phage tail protein -
  EFV54_RS07395 (EFV54_07395) - 1424547..1426082 (-) 1536 WP_010905925.1 distal tail protein Dit -
  EFV54_RS07400 (EFV54_07400) - 1426085..1431007 (-) 4923 WP_010905926.1 phage tail tape measure protein -
  EFV54_RS07405 (EFV54_07405) - 1431232..1431651 (-) 420 WP_010905927.1 phage tail assembly chaperone -
  EFV54_RS07410 (EFV54_07410) - 1431796..1432389 (-) 594 WP_010905928.1 phage tail protein -
  EFV54_RS07415 (EFV54_07415) - 1432420..1432815 (-) 396 WP_010905929.1 DUF806 family protein -
  EFV54_RS07420 (EFV54_07420) - 1432812..1433318 (-) 507 WP_010905930.1 HK97 gp10 family phage protein -
  EFV54_RS07425 (EFV54_07425) - 1433320..1433670 (-) 351 WP_010905931.1 phage head closure protein -
  EFV54_RS07430 (EFV54_07430) - 1433645..1433968 (-) 324 WP_010905932.1 head-tail connector protein -
  EFV54_RS07435 (EFV54_07435) - 1433984..1435210 (-) 1227 WP_010905933.1 phage major capsid protein -
  EFV54_RS07440 (EFV54_07440) - 1435222..1435926 (-) 705 WP_002819795.1 head maturation protease, ClpP-related -
  EFV54_RS07445 (EFV54_07445) - 1435972..1437150 (-) 1179 WP_010905935.1 phage portal protein -
  EFV54_RS07450 (EFV54_07450) - 1437147..1437356 (-) 210 WP_010905936.1 DUF1056 family protein -
  EFV54_RS07455 (EFV54_07455) - 1437325..1439295 (-) 1971 WP_164752717.1 terminase large subunit -
  EFV54_RS07460 (EFV54_07460) - 1439285..1439758 (-) 474 WP_010905938.1 phage terminase small subunit P27 family -
  EFV54_RS07465 (EFV54_07465) - 1439887..1440402 (-) 516 WP_010905939.1 HNH endonuclease -
  EFV54_RS07470 (EFV54_07470) - 1440404..1440625 (-) 222 WP_015966776.1 hypothetical protein -
  EFV54_RS07475 (EFV54_07475) - 1440857..1441279 (-) 423 WP_010905941.1 RinA family protein -
  EFV54_RS07480 (EFV54_07480) - 1441357..1441716 (-) 360 WP_010905942.1 hypothetical protein -
  EFV54_RS07495 (EFV54_07495) - 1442177..1442371 (-) 195 WP_010905945.1 DUF1660 domain-containing protein -
  EFV54_RS07500 (EFV54_07500) - 1442368..1442511 (-) 144 WP_010905946.1 hypothetical protein -
  EFV54_RS07505 (EFV54_07505) - 1442530..1442865 (-) 336 WP_010905947.1 DUF1140 family protein -
  EFV54_RS07510 (EFV54_07510) - 1442887..1443231 (-) 345 WP_010905948.1 hypothetical protein -
  EFV54_RS07515 (EFV54_07515) - 1443235..1443654 (-) 420 WP_010905949.1 dUTP diphosphatase -
  EFV54_RS07520 (EFV54_07520) - 1443651..1443938 (-) 288 WP_010905950.1 hypothetical protein -
  EFV54_RS07525 (EFV54_07525) - 1443935..1444570 (-) 636 WP_015966771.1 DUF1642 domain-containing protein -
  EFV54_RS07530 (EFV54_07530) - 1444563..1444922 (-) 360 WP_010905952.1 hypothetical protein -
  EFV54_RS07535 (EFV54_07535) - 1444931..1445440 (-) 510 WP_010905953.1 hypothetical protein -
  EFV54_RS07540 (EFV54_07540) - 1445455..1446027 (-) 573 WP_010905954.1 DUF658 family protein -
  EFV54_RS07545 (EFV54_07545) - 1446017..1446196 (-) 180 WP_010905696.1 DUF1497 domain-containing protein -
  EFV54_RS07550 (EFV54_07550) - 1446218..1446502 (-) 285 WP_241152873.1 hypothetical protein -
  EFV54_RS07555 (EFV54_07555) - 1446620..1446859 (-) 240 WP_010905956.1 DUF1031 family protein -
  EFV54_RS07560 (EFV54_07560) - 1446852..1447346 (-) 495 WP_010905957.1 hypothetical protein -
  EFV54_RS07565 (EFV54_07565) - 1447343..1447717 (-) 375 WP_010905958.1 DUF1064 domain-containing protein -
  EFV54_RS07570 (EFV54_07570) - 1447698..1447871 (-) 174 WP_010905959.1 hypothetical protein -
  EFV54_RS07575 (EFV54_07575) - 1447868..1448743 (-) 876 WP_227028637.1 ATP-binding protein -
  EFV54_RS07580 (EFV54_07580) - 1448762..1449601 (-) 840 WP_010905961.1 phage replisome organiser protein -
  EFV54_RS07585 (EFV54_07585) ssb 1449729..1450154 (-) 426 WP_010905962.1 single-stranded DNA-binding protein Machinery gene
  EFV54_RS07590 (EFV54_07590) - 1450147..1450905 (-) 759 WP_010905963.1 Rad52/Rad22 family DNA repair protein -
  EFV54_RS07595 (EFV54_07595) - 1450914..1451309 (-) 396 WP_010905964.1 hypothetical protein -
  EFV54_RS07600 (EFV54_07600) - 1451424..1451639 (-) 216 WP_010905687.1 DUF1408 domain-containing protein -
  EFV54_RS07605 (EFV54_07605) - 1451742..1452017 (+) 276 WP_010905686.1 hypothetical protein -
  EFV54_RS07610 (EFV54_07610) - 1452014..1452208 (-) 195 WP_010905685.1 hypothetical protein -
  EFV54_RS07615 (EFV54_07615) - 1452351..1452641 (-) 291 WP_010905965.1 hypothetical protein -
  EFV54_RS07620 (EFV54_07620) - 1452654..1453364 (-) 711 WP_010905966.1 phage antirepressor Ant -
  EFV54_RS07625 (EFV54_07625) - 1453378..1453611 (-) 234 WP_003131906.1 helix-turn-helix transcriptional regulator -
  EFV54_RS07630 (EFV54_07630) - 1453783..1454304 (+) 522 WP_010905968.1 helix-turn-helix domain-containing protein -
  EFV54_RS07635 (EFV54_07635) - 1454314..1454901 (+) 588 WP_010905969.1 hypothetical protein -
  EFV54_RS07640 (EFV54_07640) - 1454966..1455817 (+) 852 WP_010905970.1 CD20-like domain-containing protein -
  EFV54_RS07645 (EFV54_07645) - 1455940..1457019 (+) 1080 WP_010905971.1 site-specific integrase -
  EFV54_RS07655 (EFV54_07655) - 1457724..1458059 (-) 336 WP_003130477.1 putative DNA-binding protein -

Sequence

Protein


Download         Length: 141 a.a.        Molecular weight: 15701.41 Da        Isoelectric Point: 5.1972

>NTDB_id=324369 EFV54_RS07585 WP_010905962.1 1449729..1450154(-) (ssb) [Lactococcus lactis strain IL1403]
MINNVTLVGRITKEPELRYTPQNKAVATFTLAVNRAFKNANGEREADFINCVIWGKSAENLANWTHKGQLIGVTGSIQTR
NYENQQGQRVYVTEVIANNFQVLEKSNQANGERVSNPAAKPQNNDSFGSDPMEISDDDLPF

Nucleotide


Download         Length: 426 bp        

>NTDB_id=324369 EFV54_RS07585 WP_010905962.1 1449729..1450154(-) (ssb) [Lactococcus lactis strain IL1403]
ATGATTAACAATGTCACTCTAGTAGGGCGAATTACTAAAGAACCTGAACTTAGATATACACCACAAAATAAAGCAGTTGC
CACTTTTACTCTTGCAGTTAATCGAGCATTTAAAAATGCTAATGGAGAAAGAGAAGCTGACTTTATCAATTGTGTTATTT
GGGGTAAATCAGCCGAAAACTTGGCCAATTGGACTCATAAAGGTCAATTAATCGGAGTTACTGGTAGTATTCAAACTCGA
AACTACGAGAACCAACAAGGTCAACGAGTTTATGTAACAGAAGTCATTGCAAACAATTTCCAAGTACTTGAAAAAAGCAA
TCAAGCAAATGGTGAACGAGTTAGTAATCCAGCTGCAAAACCACAAAATAATGATTCTTTTGGAAGTGATCCAATGGAAA
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

54.118

100

0.652
  ssbA Bacillus subtilis subsp. subtilis str. 168

52.907

100

0.645
  ssbB/cilA Streptococcus pneumoniae TIGR4

44.681

100

0.447
  ssbB Streptococcus sobrinus strain NIDR 6715-7

44.681

100

0.447
  ssbB/cilA Streptococcus mitis NCTC 12261

44.681

100

0.447
  ssbB/cilA Streptococcus pneumoniae Rx1

43.972

100

0.44
  ssbB/cilA Streptococcus pneumoniae D39

43.972

100

0.44
  ssbB/cilA Streptococcus pneumoniae R6

43.972

100

0.44
  ssbB/cilA Streptococcus mitis SK321

43.972

100

0.44
  ssbB Bacillus subtilis subsp. subtilis str. 168

58.654

73.759

0.433
  ssbA Streptococcus mutans UA159

40.426

100

0.404
  ssbB Lactococcus lactis subsp. cremoris KW2

49.515

73.05

0.362

Multiple sequence alignment