Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   QOR59_RS01090 Genome accession   NZ_OX460985
Coordinates   187960..189003 (+) Length   347 a.a.
NCBI ID   WP_223295592.1    Uniprot ID   -
Organism   Streptococcus agalactiae isolate MRI Z2-307     
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)
ICE 189919..233089 187960..189003 flank 916


Gene organization within MGE regions


Location: 187960..233089
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QOR59_RS01090 comYB 187960..189003 (+) 1044 WP_223295592.1 competence type IV pilus assembly protein ComGB Machinery gene
  QOR59_RS01095 comGC/cglC 189000..189329 (+) 330 WP_000793380.1 competence type IV pilus major pilin ComGC Machinery gene
  QOR59_RS01100 comYD 189304..189717 (+) 414 WP_000244259.1 competence type IV pilus minor pilin ComGD Machinery gene
  QOR59_RS01105 comGE 189689..189988 (+) 300 WP_001867089.1 competence type IV pilus minor pilin ComGE -
  QOR59_RS01110 comGF 189942..190403 (+) 462 WP_001874060.1 competence type IV pilus minor pilin ComGF -
  QOR59_RS01115 comGG 190381..190752 (+) 372 WP_000601104.1 competence type IV pilus minor pilin ComGG -
  QOR59_RS01120 comYH 190867..191841 (+) 975 WP_001008570.1 class I SAM-dependent methyltransferase Machinery gene
  QOR59_RS01125 - 191873..193066 (+) 1194 WP_000047535.1 acetate kinase -
  QOR59_RS01130 - 193217..193423 (+) 207 WP_000798242.1 helix-turn-helix transcriptional regulator -
  QOR59_RS01135 - 193482..193619 (+) 138 WP_001867090.1 hypothetical protein -
  QOR59_RS01140 - 193660..194115 (+) 456 WP_000905674.1 hypothetical protein -
  QOR59_RS01145 - 194184..194849 (+) 666 WP_000008111.1 type II CAAX endopeptidase family protein -
  QOR59_RS01150 proC 194870..195640 (-) 771 WP_001867096.1 pyrroline-5-carboxylate reductase -
  QOR59_RS01155 pepA 195710..196777 (-) 1068 WP_001281321.1 glutamyl aminopeptidase -
  QOR59_RS01160 - 196962..197201 (-) 240 WP_000660181.1 hypothetical protein -
  QOR59_RS01165 - 197362..197646 (+) 285 WP_000791272.1 DUF4651 domain-containing protein -
  QOR59_RS01170 - 197643..197966 (+) 324 WP_000601792.1 thioredoxin family protein -
  QOR59_RS01175 ytpR 197999..198625 (+) 627 WP_000578331.1 YtpR family tRNA-binding protein -
  QOR59_RS01180 - 198679..199395 (-) 717 WP_000186183.1 class I SAM-dependent methyltransferase -
  QOR59_RS01185 ssbA 199476..199871 (+) 396 WP_000282450.1 single-stranded DNA-binding protein Machinery gene
  QOR59_RS01190 - 199994..200638 (+) 645 WP_000416612.1 HAD family hydrolase -
  QOR59_RS01195 - 200665..202410 (+) 1746 WP_000930334.1 LytS/YhcK type 5TM receptor domain-containing protein -
  QOR59_RS01200 - 202391..203131 (+) 741 WP_000697630.1 LytTR family transcriptional regulator DNA-binding domain-containing protein -
  QOR59_RS01205 - 203301..203756 (+) 456 WP_000683316.1 CidA/LrgA family protein -
  QOR59_RS01210 lrgB 203758..204486 (+) 729 WP_000421727.1 antiholin-like protein LrgB -
  QOR59_RS01215 - 204729..206357 (+) 1629 WP_000170504.1 ABC transporter substrate-binding protein -
  QOR59_RS01220 - 206470..207447 (+) 978 WP_000680645.1 ABC transporter permease -
  QOR59_RS01225 - 207444..208265 (+) 822 WP_000603397.1 ABC transporter permease -
  QOR59_RS01230 - 208277..209080 (+) 804 WP_000140979.1 ABC transporter ATP-binding protein -
  QOR59_RS01235 - 209064..209690 (+) 627 WP_000171304.1 ABC transporter ATP-binding protein -
  QOR59_RS01240 treP 209972..212002 (+) 2031 WP_017768545.1 PTS system trehalose-specific EIIBC component -
  QOR59_RS01245 treC 212224..213849 (+) 1626 WP_000151014.1 alpha,alpha-phosphotrehalase -
  QOR59_RS01250 - 214069..216105 (+) 2037 WP_000228178.1 BglG family transcription antiterminator -
  QOR59_RS01255 - 216108..216392 (+) 285 WP_000944235.1 PTS sugar transporter subunit IIB -
  QOR59_RS01260 - 216405..217760 (+) 1356 WP_000677351.1 PTS ascorbate transporter subunit IIC -
  QOR59_RS01265 - 217763..218620 (+) 858 WP_000203492.1 transketolase -
  QOR59_RS01270 - 218617..219546 (+) 930 WP_001203827.1 transketolase C-terminal domain-containing protein -
  QOR59_RS01275 - 219655..220914 (+) 1260 WP_001203074.1 ferric reductase-like transmembrane domain-containing protein -
  QOR59_RS01280 rpsO 221002..221271 (+) 270 WP_001018249.1 30S ribosomal protein S15 -
  QOR59_RS01285 pnp 221652..223781 (+) 2130 WP_000043857.1 polyribonucleotide nucleotidyltransferase -
  QOR59_RS01290 - 223783..224535 (+) 753 WP_000204784.1 SseB family protein -
  QOR59_RS01295 cysE 224544..225128 (+) 585 WP_000539954.1 serine O-acetyltransferase -
  QOR59_RS01300 - 225138..225320 (+) 183 WP_000656477.1 hypothetical protein -
  QOR59_RS01305 cysS 225317..226660 (+) 1344 WP_000591129.1 cysteine--tRNA ligase -
  QOR59_RS01310 - 226653..227039 (+) 387 WP_000568029.1 Mini-ribonuclease 3 -
  QOR59_RS01315 rlmB 227142..227897 (+) 756 WP_000178019.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -
  QOR59_RS01320 - 227894..228412 (+) 519 WP_000716636.1 NYN domain-containing protein -
  QOR59_RS01325 - 228505..229365 (+) 861 WP_000143135.1 DegV family protein -
  QOR59_RS01330 - 229903..230022 (+) 120 Protein_209 helix-turn-helix domain-containing protein -
  QOR59_RS01335 - 230340..231506 (-) 1167 WP_000160598.1 IS30-like element ISSag9 family transposase -
  QOR59_RS01340 rplM 231807..232253 (+) 447 WP_001867156.1 50S ribosomal protein L13 -
  QOR59_RS01345 rpsI 232274..232666 (+) 393 WP_000035940.1 30S ribosomal protein S9 -

Sequence

Protein


Download         Length: 347 a.a.        Molecular weight: 40005.70 Da        Isoelectric Point: 9.9365

>NTDB_id=1159584 QOR59_RS01090 WP_223295592.1 187960..189003(+) (comYB) [Streptococcus agalactiae isolate MRI Z2-307]
MDKWISWLKKDISVRNRHKSKKLSLKKQRKVVQLFNNLFASGFSLTDMVTFLKRSKLLSDYYTDRMNKALLEGKDLSKML
GELGFSDTVITQVALADLHGNISRSLLKIESYLANLLLVRKKVIEVATYPLILLTFLVLIMIGLRHYLMPQLGENNFATS
LITNVPNIFLLLLAVVLIFSLIFYIVQKRLSRIKVACFLTTIPLVGSYVKLYLTAYYAREWGNLLSQGVELDQIVKVMQN
QKSKLFREIGYDMEEGFLSGKAFHQKVLDYPFFLTELSLMIEYGQVKAKLGTELDIYADEKWEDFFTKLARATQLIQPVI
FIFVALIIVMIYAAMLLPMYQNMEILS

Nucleotide


Download         Length: 1044 bp        

>NTDB_id=1159584 QOR59_RS01090 WP_223295592.1 187960..189003(+) (comYB) [Streptococcus agalactiae isolate MRI Z2-307]
ATAGACAAGTGGATATCTTGGCTGAAGAAGGACATATCAGTAAGAAACAGGCACAAGTCGAAAAAATTATCCCTCAAGAA
ACAACGGAAAGTAGTCCAACTTTTTAATAATCTTTTTGCTAGTGGTTTTTCTTTAACTGATATGGTCACCTTCTTAAAGA
GGAGTAAGTTATTGTCTGATTATTATACAGATAGGATGAATAAGGCATTATTAGAGGGAAAAGATTTATCAAAAATGTTA
GGAGAGTTAGGTTTTTCTGACACTGTTATCACACAGGTTGCATTAGCTGATTTGCATGGTAACATTTCAAGGAGCCTACT
AAAGATTGAGTCTTATTTAGCTAATCTTTTGTTAGTTAGAAAAAAAGTAATAGAAGTAGCTACTTACCCATTGATATTAT
TGACTTTTCTGGTGCTAATTATGATTGGTCTTAGGCATTATTTAATGCCCCAATTAGGAGAAAATAATTTTGCAACTAGC
CTGATTACAAATGTGCCGAATATTTTCTTATTACTTTTAGCAGTTGTACTTATTTTTAGTTTAATATTTTATATTGTTCA
AAAGCGATTGTCGCGTATTAAAGTAGCTTGTTTTTTAACAACAATTCCCTTAGTTGGATCATATGTTAAGCTTTATTTAA
CTGCTTACTATGCCCGTGAGTGGGGAAATTTATTAAGTCAAGGTGTTGAATTGGACCAAATTGTTAAAGTAATGCAAAAT
CAGAAATCCAAACTTTTTAGGGAAATAGGATATGACATGGAAGAAGGTTTTCTATCAGGTAAAGCATTTCACCAAAAAGT
ATTAGACTATCCGTTTTTCTTAACTGAGCTTAGTTTAATGATTGAATATGGCCAAGTTAAGGCGAAATTAGGAACAGAGT
TAGATATATATGCTGATGAGAAGTGGGAGGATTTTTTTACAAAATTAGCTAGAGCGACCCAGTTAATCCAACCTGTTATT
TTTATTTTTGTAGCTCTTATCATTGTTATGATTTATGCAGCAATGCTGTTACCAATGTATCAAAATATGGAGATATTATC
ATGA

Domains

Predicted by InterproScan.

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

(218-338)

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

(33-150)


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
  comYB Streptococcus mutans UA140

61.877

98.271

0.608
  comYB Streptococcus mutans UA159

61.584

98.271

0.605
  comYB Streptococcus gordonii str. Challis substr. CH1

56.305

98.271

0.553
  comGB/cglB Streptococcus mitis NCTC 12261

54.925

96.542

0.53
  comGB/cglB Streptococcus mitis SK321

54.328

96.542

0.524
  comGB/cglB Streptococcus pneumoniae Rx1

53.433

96.542

0.516
  comGB/cglB Streptococcus pneumoniae D39

53.433

96.542

0.516
  comGB/cglB Streptococcus pneumoniae R6

53.433

96.542

0.516
  comGB/cglB Streptococcus pneumoniae TIGR4

53.433

96.542

0.516
  comGB Lactococcus lactis subsp. cremoris KW2

49.852

97.118

0.484

Multiple sequence alignment