Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   QZN16_RS01085 Genome accession   NZ_CP129876
Coordinates   188052..189095 (+) Length   347 a.a.
NCBI ID   WP_223295592.1    Uniprot ID   -
Organism   Streptococcus agalactiae strain NEM316     
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 190011..233191 188052..189095 flank 916


Gene organization within MGE regions


Location: 188052..233191
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QZN16_RS01085 comYB 188052..189095 (+) 1044 WP_223295592.1 competence type IV pilus assembly protein ComGB Machinery gene
  QZN16_RS01090 comGC/cglC 189092..189421 (+) 330 WP_000793380.1 competence type IV pilus major pilin ComGC Machinery gene
  QZN16_RS01095 comYD 189396..189809 (+) 414 WP_000244259.1 competence type IV pilus minor pilin ComGD Machinery gene
  QZN16_RS01100 comGE 189781..190080 (+) 300 WP_001867089.1 competence type IV pilus minor pilin ComGE -
  QZN16_RS01105 comGF 190034..190495 (+) 462 WP_001874060.1 competence type IV pilus minor pilin ComGF -
  QZN16_RS01110 comGG 190473..190844 (+) 372 WP_000601104.1 competence type IV pilus minor pilin ComGG -
  QZN16_RS01115 comYH 190959..191933 (+) 975 WP_001008570.1 class I SAM-dependent methyltransferase Machinery gene
  QZN16_RS01120 - 191965..193158 (+) 1194 WP_000047535.1 acetate kinase -
  QZN16_RS01125 - 193309..193515 (+) 207 WP_000798242.1 helix-turn-helix transcriptional regulator -
  QZN16_RS01130 - 193574..193711 (+) 138 WP_001867090.1 hypothetical protein -
  QZN16_RS01135 - 193752..194207 (+) 456 WP_000905674.1 hypothetical protein -
  QZN16_RS01140 - 194276..194941 (+) 666 WP_000008111.1 type II CAAX endopeptidase family protein -
  QZN16_RS01145 proC 194962..195732 (-) 771 WP_001867096.1 pyrroline-5-carboxylate reductase -
  QZN16_RS01150 pepA 195802..196869 (-) 1068 WP_001281321.1 glutamyl aminopeptidase -
  QZN16_RS01155 - 197054..197293 (-) 240 WP_000660181.1 hypothetical protein -
  QZN16_RS01160 - 197454..197738 (+) 285 WP_000791272.1 DUF4651 domain-containing protein -
  QZN16_RS01165 - 197735..198058 (+) 324 WP_000601792.1 thioredoxin family protein -
  QZN16_RS01170 ytpR 198091..198717 (+) 627 WP_000578331.1 YtpR family tRNA-binding protein -
  QZN16_RS01175 - 198771..199487 (-) 717 WP_000186183.1 class I SAM-dependent methyltransferase -
  QZN16_RS01180 ssbA 199568..199963 (+) 396 WP_000282450.1 single-stranded DNA-binding protein Machinery gene
  QZN16_RS01185 - 200086..200730 (+) 645 WP_000416612.1 HAD family phosphatase -
  QZN16_RS01190 - 200757..202502 (+) 1746 WP_000930334.1 LytS/YhcK type 5TM receptor domain-containing protein -
  QZN16_RS01195 - 202483..203223 (+) 741 WP_000697630.1 LytTR family transcriptional regulator DNA-binding domain-containing protein -
  QZN16_RS01200 - 203393..203848 (+) 456 WP_000683316.1 CidA/LrgA family protein -
  QZN16_RS01205 lrgB 203850..204578 (+) 729 WP_000421727.1 antiholin-like protein LrgB -
  QZN16_RS01210 - 204821..206449 (+) 1629 WP_000170504.1 ABC transporter substrate-binding protein -
  QZN16_RS01215 - 206562..207539 (+) 978 WP_000680645.1 ABC transporter permease -
  QZN16_RS01220 - 207536..208357 (+) 822 WP_000603397.1 ABC transporter permease -
  QZN16_RS01225 - 208369..209172 (+) 804 WP_000140979.1 ABC transporter ATP-binding protein -
  QZN16_RS01230 - 209156..209782 (+) 627 WP_000171304.1 ABC transporter ATP-binding protein -
  QZN16_RS01235 treP 210064..212094 (+) 2031 WP_000434617.1 PTS system trehalose-specific EIIBC component -
  QZN16_RS01240 treC 212316..213941 (+) 1626 WP_000151014.1 alpha,alpha-phosphotrehalase -
  QZN16_RS01245 - 214161..216197 (+) 2037 WP_000228178.1 BglG family transcription antiterminator -
  QZN16_RS01250 - 216200..216484 (+) 285 WP_000944235.1 PTS sugar transporter subunit IIB -
  QZN16_RS01255 - 216497..217852 (+) 1356 WP_000677351.1 PTS ascorbate transporter subunit IIC -
  QZN16_RS01260 - 217855..218712 (+) 858 WP_000203492.1 transketolase -
  QZN16_RS01265 - 218709..219638 (+) 930 WP_001203827.1 transketolase C-terminal domain-containing protein -
  QZN16_RS01270 - 219747..221006 (+) 1260 WP_001203074.1 ferric reductase-like transmembrane domain-containing protein -
  QZN16_RS01275 rpsO 221094..221363 (+) 270 WP_001018249.1 30S ribosomal protein S15 -
  QZN16_RS01280 pnp 221744..223873 (+) 2130 WP_000043857.1 polyribonucleotide nucleotidyltransferase -
  QZN16_RS01285 - 223875..224627 (+) 753 WP_000204784.1 SseB family protein -
  QZN16_RS01290 cysE 224636..225220 (+) 585 WP_000539954.1 serine O-acetyltransferase -
  QZN16_RS01295 - 225230..225412 (+) 183 WP_000656477.1 hypothetical protein -
  QZN16_RS01300 cysS 225409..226752 (+) 1344 WP_000591129.1 cysteine--tRNA ligase -
  QZN16_RS01305 - 226745..227131 (+) 387 WP_000568029.1 Mini-ribonuclease 3 -
  QZN16_RS01310 rlmB 227234..227989 (+) 756 WP_000178019.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -
  QZN16_RS01315 - 227986..228504 (+) 519 WP_000716637.1 NYN domain-containing protein -
  QZN16_RS01320 - 228597..229457 (+) 861 WP_000143135.1 DegV family protein -
  QZN16_RS01325 - 229995..230114 (+) 120 Protein_208 helix-turn-helix domain-containing protein -
  QZN16_RS01330 - 230442..231608 (-) 1167 WP_000160598.1 IS30-like element ISSag9 family transposase -
  QZN16_RS01335 rplM 231909..232355 (+) 447 WP_001867156.1 50S ribosomal protein L13 -
  QZN16_RS01340 rpsI 232376..232768 (+) 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=856027 QZN16_RS01085 WP_223295592.1 188052..189095(+) (comYB) [Streptococcus agalactiae strain NEM316]
MDKWISWLKKDISVRNRHKSKKLSLKKQRKVVQLFNNLFASGFSLTDMVTFLKRSKLLSDYYTDRMNKALLEGKDLSKML
GELGFSDTVITQVALADLHGNISRSLLKIESYLANLLLVRKKVIEVATYPLILLTFLVLIMIGLRHYLMPQLGENNFATS
LITNVPNIFLLLLAVVLIFSLIFYIVQKRLSRIKVACFLTTIPLVGSYVKLYLTAYYAREWGNLLSQGVELDQIVKVMQN
QKSKLFREIGYDMEEGFLSGKAFHQKVLDYPFFLTELSLMIEYGQVKAKLGTELDIYADEKWEDFFTKLARATQLIQPVI
FIFVALIIVMIYAAMLLPMYQNMEILS

Nucleotide


Download         Length: 1044 bp        

>NTDB_id=856027 QZN16_RS01085 WP_223295592.1 188052..189095(+) (comYB) [Streptococcus agalactiae strain NEM316]
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