Detailed information    

insolico Bioinformatically predicted

Overview

Name   comGB   Type   Machinery gene
Locus tag   ABKA22_RS11420 Genome accession   NZ_CP157287
Coordinates   2248553..2249626 (-) Length   357 a.a.
NCBI ID   WP_251906127.1    Uniprot ID   -
Organism   Lactococcus lactis strain BIM B-1834     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

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 2214119..2249572 2248553..2249626 flank -1019


Gene organization within MGE regions


Location: 2214119..2249626
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABKA22_RS11180 (ABKA22_11180) - 2214119..2214898 (-) 780 WP_348619035.1 peptidoglycan amidohydrolase family protein -
  ABKA22_RS11185 (ABKA22_11185) - 2214898..2215197 (-) 300 WP_010905918.1 phage holin -
  ABKA22_RS11190 (ABKA22_11190) - 2215210..2215434 (-) 225 WP_023189750.1 hemolysin XhlA family protein -
  ABKA22_RS11195 (ABKA22_11195) - 2215447..2215683 (-) 237 WP_025017282.1 hypothetical protein -
  ABKA22_RS11200 (ABKA22_11200) - 2215694..2219443 (-) 3750 WP_348619036.1 hypothetical protein -
  ABKA22_RS11205 (ABKA22_11205) - 2219443..2220966 (-) 1524 WP_348619037.1 distal tail protein Dit -
  ABKA22_RS11210 (ABKA22_11210) - 2220980..2221120 (-) 141 WP_348619038.1 hypothetical protein -
  ABKA22_RS11215 (ABKA22_11215) - 2221218..2223584 (-) 2367 WP_348619039.1 phage tail tape measure protein -
  ABKA22_RS11220 (ABKA22_11220) - 2223574..2224281 (-) 708 WP_348619040.1 Gp15 family bacteriophage protein -
  ABKA22_RS11225 (ABKA22_11225) - 2224297..2224704 (-) 408 WP_003131323.1 hypothetical protein -
  ABKA22_RS11230 (ABKA22_11230) - 2224761..2225237 (-) 477 WP_014570559.1 hypothetical protein -
  ABKA22_RS11235 (ABKA22_11235) - 2225248..2225682 (-) 435 WP_003131321.1 minor capsid protein -
  ABKA22_RS11240 (ABKA22_11240) - 2225682..2226011 (-) 330 WP_003131320.1 hypothetical protein -
  ABKA22_RS11245 (ABKA22_11245) - 2226008..2226352 (-) 345 WP_014570557.1 putative minor capsid protein -
  ABKA22_RS11250 (ABKA22_11250) - 2226342..2226743 (-) 402 WP_014570556.1 hypothetical protein -
  ABKA22_RS11255 (ABKA22_11255) - 2226817..2227053 (-) 237 WP_014570555.1 Ig-like domain-containing protein -
  ABKA22_RS11260 (ABKA22_11260) - 2227082..2227999 (-) 918 WP_240834885.1 phage capsid protein -
  ABKA22_RS11265 (ABKA22_11265) - 2228014..2229063 (-) 1050 WP_348619041.1 XkdF-like putative serine protease domain-containing protein -
  ABKA22_RS11270 (ABKA22_11270) - 2229079..2229909 (-) 831 WP_348619042.1 phage minor head protein -
  ABKA22_RS11275 (ABKA22_11275) - 2229902..2231431 (-) 1530 WP_348619043.1 phage portal protein -
  ABKA22_RS11280 (ABKA22_11280) - 2231499..2232551 (-) 1053 WP_348619044.1 DUF4062 domain-containing protein -
  ABKA22_RS11285 (ABKA22_11285) - 2232616..2233914 (-) 1299 WP_348619045.1 PBSX family phage terminase large subunit -
  ABKA22_RS11290 (ABKA22_11290) - 2233874..2234374 (-) 501 WP_205468950.1 terminase small subunit -
  ABKA22_RS11295 (ABKA22_11295) - 2234548..2234937 (-) 390 WP_031561062.1 DUF722 domain-containing protein -
  ABKA22_RS11300 (ABKA22_11300) - 2235356..2235670 (-) 315 WP_259760528.1 hypothetical protein -
  ABKA22_RS11305 (ABKA22_11305) - 2235667..2235849 (-) 183 WP_348619046.1 hypothetical protein -
  ABKA22_RS11310 (ABKA22_11310) - 2236068..2236421 (-) 354 WP_032398679.1 hypothetical protein -
  ABKA22_RS11315 (ABKA22_11315) - 2236418..2236603 (-) 186 WP_348619047.1 DUF1660 family phage protein -
  ABKA22_RS11320 (ABKA22_11320) - 2236600..2236833 (-) 234 WP_075070434.1 hypothetical protein -
  ABKA22_RS11325 (ABKA22_11325) - 2237005..2237697 (-) 693 WP_348619048.1 hypothetical protein -
  ABKA22_RS11330 (ABKA22_11330) - 2237684..2238049 (-) 366 WP_289446579.1 hypothetical protein -
  ABKA22_RS11335 (ABKA22_11335) - 2238042..2238503 (-) 462 WP_348619049.1 hypothetical protein -
  ABKA22_RS11340 (ABKA22_11340) - 2238512..2239186 (-) 675 WP_348619050.1 DUF1642 domain-containing protein -
  ABKA22_RS11345 (ABKA22_11345) - 2239183..2239458 (-) 276 WP_289448607.1 hypothetical protein -
  ABKA22_RS11350 (ABKA22_11350) - 2239781..2240191 (-) 411 WP_014570810.1 hypothetical protein -
  ABKA22_RS11355 (ABKA22_11355) - 2240204..2240446 (-) 243 WP_348619051.1 hypothetical protein -
  ABKA22_RS11360 (ABKA22_11360) - 2240439..2241362 (-) 924 WP_348619052.1 phage replisome organizer N-terminal domain-containing protein -
  ABKA22_RS11365 (ABKA22_11365) - 2241637..2242563 (-) 927 WP_348619053.1 RecT family recombinase -
  ABKA22_RS11370 (ABKA22_11370) - 2242560..2243393 (-) 834 WP_095345748.1 hypothetical protein -
  ABKA22_RS11375 (ABKA22_11375) - 2243497..2243739 (-) 243 WP_348619054.1 hypothetical protein -
  ABKA22_RS11380 (ABKA22_11380) - 2243752..2243874 (-) 123 WP_023164646.1 hypothetical protein -
  ABKA22_RS11385 (ABKA22_11385) - 2243871..2244053 (-) 183 WP_003130605.1 hypothetical protein -
  ABKA22_RS11390 (ABKA22_11390) - 2244069..2244758 (-) 690 WP_014570818.1 phage regulatory protein -
  ABKA22_RS11395 (ABKA22_11395) - 2244817..2245050 (-) 234 WP_014570819.1 transcriptional regulator -
  ABKA22_RS11400 (ABKA22_11400) - 2245227..2245637 (+) 411 WP_014570820.1 helix-turn-helix transcriptional regulator -
  ABKA22_RS11405 (ABKA22_11405) - 2245648..2246232 (+) 585 WP_348619055.1 hypothetical protein -
  ABKA22_RS11410 (ABKA22_11410) - 2246288..2246827 (+) 540 WP_023189015.1 PH domain-containing protein -
  ABKA22_RS11415 (ABKA22_11415) - 2246947..2248404 (+) 1458 WP_031561103.1 recombinase family protein -
  ABKA22_RS11420 (ABKA22_11420) comGB 2248553..2249626 (-) 1074 WP_251906127.1 competence type IV pilus assembly protein ComGB Machinery gene

Sequence

Protein


Download         Length: 357 a.a.        Molecular weight: 40495.75 Da        Isoelectric Point: 10.4062

>NTDB_id=1005459 ABKA22_RS11420 WP_251906127.1 2248553..2249626(-) (comGB) [Lactococcus lactis strain BIM B-1834]
MSLGHQKIGIKKLISYLQMDISHLLKPRWKKLRLIKQAKLIQLMGNLLNSGFNLGEVINFLSLSKLVEKKFTLKMKEGLA
SGQALSELLESLSFSKNVVTQLALVEVHGNLSGTMQLVELHLKKQLKVKNKLVEVATYPILLLIFLVGIMWGLKNYLLPQ
LNSGSNFATLLINHLPLVFFSFGAFIFLLTALSVTLFKRKSAIMNFTFLVKLPLVHSFIRLYLTAYFAREWGNLIAQGVE
LRQIINLMKKQKSRIFSEVGKNLDLELNAGRSFEQAVSKLALFLPELSLMIEYGAIKDKLGLELSLYADECWEHFFTKID
RLMQLIQPLVFIFVALMIILLYAAMLLPIYSNMGSGI

Nucleotide


Download         Length: 1074 bp        

>NTDB_id=1005459 ABKA22_RS11420 WP_251906127.1 2248553..2249626(-) (comGB) [Lactococcus lactis strain BIM B-1834]
TTGAGTCTTGGTCATCAGAAAATTGGAATAAAAAAATTGATCAGCTACTTACAAATGGATATCTCACACCTACTGAAGCC
AAGATGGAAAAAATTAAGGCTGATTAAACAAGCCAAACTTATCCAACTGATGGGAAATCTTTTGAATAGTGGATTTAATT
TAGGAGAAGTGATAAATTTCTTATCTTTATCAAAACTTGTGGAAAAAAAATTTACATTGAAAATGAAAGAAGGTCTCGCT
TCTGGTCAAGCTTTATCAGAGCTTTTAGAAAGTCTTTCATTTTCTAAAAATGTGGTGACACAACTTGCTTTGGTAGAAGT
GCATGGTAACTTGTCAGGGACGATGCAATTGGTTGAACTTCATCTAAAAAAACAGCTTAAAGTTAAAAATAAATTAGTGG
AAGTTGCTACTTATCCAATATTGTTATTAATTTTTCTGGTTGGAATTATGTGGGGCTTAAAAAATTATTTACTACCACAA
CTCAATAGTGGCAGTAACTTTGCTACTCTATTGATTAATCATTTACCCTTAGTATTTTTTTCGTTTGGAGCTTTTATATT
TTTACTGACAGCTTTGTCAGTAACTCTTTTTAAACGAAAATCAGCAATAATGAATTTTACCTTTCTTGTTAAATTACCTC
TGGTTCATTCTTTTATCCGTTTATATTTAACAGCTTACTTTGCAAGAGAATGGGGAAATCTAATTGCTCAAGGTGTTGAA
TTACGTCAAATTATTAACTTGATGAAAAAACAAAAAAGTCGAATTTTTTCAGAAGTTGGCAAGAATCTTGATTTAGAATT
GAATGCTGGTCGGTCTTTTGAACAAGCTGTCAGTAAACTTGCGCTTTTTTTACCCGAGCTCTCATTAATGATTGAATATG
GAGCTATTAAAGATAAATTAGGCTTAGAGCTTTCGCTTTATGCGGATGAATGTTGGGAACATTTTTTTACAAAGATAGAT
CGTTTAATGCAATTAATCCAACCTCTTGTTTTTATTTTCGTAGCATTGATGATTATTTTGCTATATGCAGCCATGTTACT
CCCCATCTATTCAAATATGGGTTCTGGAATATAG

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(41-159)

Type II secretion system (T2SS), protein F (T2SSF)

(227-348)


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
  comGB Lactococcus lactis subsp. cremoris KW2

82.405

95.518

0.787
  comYB Streptococcus gordonii str. Challis substr. CH1

53.666

95.518

0.513
  comYB Streptococcus mutans UA140

53.372

95.518

0.51
  comYB Streptococcus mutans UA159

53.079

95.518

0.507
  comGB/cglB Streptococcus pneumoniae TIGR4

51.343

93.838

0.482
  comGB/cglB Streptococcus pneumoniae D39

51.343

93.838

0.482
  comGB/cglB Streptococcus pneumoniae R6

51.343

93.838

0.482
  comGB/cglB Streptococcus pneumoniae Rx1

51.343

93.838

0.482
  comGB/cglB Streptococcus mitis SK321

51.045

93.838

0.479
  comGB/cglB Streptococcus mitis NCTC 12261

50.149

93.838

0.471

Multiple sequence alignment