Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   RG879_RS01115 Genome accession   NZ_CP134202
Coordinates   188166..189209 (+) Length   347 a.a.
NCBI ID   WP_223295889.1    Uniprot ID   -
Organism   Streptococcus agalactiae strain Alim_agalac_1000     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 183166..194209
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RG879_RS01105 - 186763..187128 (+) 366 WP_000285373.1 DUF1033 family protein -
  RG879_RS01110 comYA 187301..188272 (+) 972 WP_000250805.1 competence type IV pilus ATPase ComGA Machinery gene
  RG879_RS01115 comYB 188166..189209 (+) 1044 WP_223295889.1 competence type IV pilus assembly protein ComGB Machinery gene
  RG879_RS01120 comGC/cglC 189206..189535 (+) 330 WP_000793380.1 competence type IV pilus major pilin ComGC Machinery gene
  RG879_RS01125 comYD 189510..189923 (+) 414 WP_000244261.1 competence type IV pilus minor pilin ComGD Machinery gene
  RG879_RS01130 comGE 189895..190194 (+) 300 WP_000234804.1 competence type IV pilus minor pilin ComGE -
  RG879_RS01135 comGF 190148..190609 (+) 462 WP_001878820.1 competence type IV pilus minor pilin ComGF -
  RG879_RS01140 comGG 190587..190958 (+) 372 WP_000601104.1 competence type IV pilus minor pilin ComGG -
  RG879_RS01145 comYH 191073..192047 (+) 975 WP_001008574.1 class I SAM-dependent methyltransferase Machinery gene
  RG879_RS01150 - 192079..193272 (+) 1194 WP_000047534.1 acetate kinase -
  RG879_RS01155 - 193424..193630 (+) 207 WP_000798241.1 helix-turn-helix transcriptional regulator -
  RG879_RS01160 - 193689..193826 (+) 138 WP_001865900.1 hypothetical protein -

Sequence

Protein


Download         Length: 347 a.a.        Molecular weight: 39936.65 Da        Isoelectric Point: 9.9002

>NTDB_id=879269 RG879_RS01115 WP_223295889.1 188166..189209(+) (comYB) [Streptococcus agalactiae strain Alim_agalac_1000]
MDKWISWLKKDISVRNRHKSKKLSLKKQRKVVQLFNNLFASGFSLTDMVTFLKRSKLLSDCYTDSMNKALLEGKDLSKML
GELGFSDTVITQVALADLHGNISRSLLKIESYLANLLLVRKKVIEVATYPLILLSFLVLIMIGLRNYLMPQLGENNFATR
LITNVPNIFLLLLAVVLIFSLIFYIIQKRLSRIKVACFLTTIPLVGSYVKLYLTAYYAREWGNLLSQGIELDQIVKVMQN
QKSKLFREIGYDMEEGFLSGKAFHQKVLDYPFFLTELSLMIEYGQVKAKLGTELDIYADEKWEDFFTKLARATQLIQPVI
FIFVALIIVMIYAAMLLPMYQNMEILS

Nucleotide


Download         Length: 1044 bp        

>NTDB_id=879269 RG879_RS01115 WP_223295889.1 188166..189209(+) (comYB) [Streptococcus agalactiae strain Alim_agalac_1000]
ATAGACAAGTGGATATCTTGGCTGAAGAAGGACATATCAGTAAGAAACAGGCACAAGTCGAAAAAATTATCCCTCAAGAA
ACAACGGAAAGTAGTCCAACTTTTTAATAATCTTTTTGCTAGTGGTTTTTCTTTAACTGATATGGTCACCTTCTTAAAGA
GGAGTAAGTTATTGTCTGATTGTTATACAGATAGTATGAATAAGGCATTATTAGAGGGAAAAGATTTATCAAAAATGTTA
GGAGAGTTAGGTTTTTCTGACACTGTTATCACACAGGTTGCATTAGCTGATTTGCATGGTAACATTTCAAGGAGCCTACT
AAAGATTGAGTCTTATTTAGCTAATCTTTTGTTAGTTAGAAAAAAAGTAATAGAAGTAGCTACTTACCCATTGATATTAT
TGTCTTTTCTGGTGCTAATTATGATTGGCCTTAGGAATTATTTAATGCCCCAATTAGGAGAAAATAATTTTGCAACTAGA
CTGATTACAAATGTGCCGAATATTTTCTTATTACTTTTAGCAGTTGTACTTATTTTTAGTTTAATATTTTATATTATTCA
AAAGCGATTGTCGCGCATTAAAGTAGCTTGTTTTTTAACAACAATTCCCTTAGTTGGATCATATGTTAAGCTTTATTTAA
CTGCTTACTATGCCCGTGAGTGGGGAAATTTATTAAGTCAAGGTATTGAATTGGACCAAATTGTTAAAGTAATGCAAAAT
CAGAAATCCAAACTTTTTAGGGAAATAGGATATGACATGGAAGAAGGTTTTCTATCAGGTAAAGCATTTCACCAAAAAGT
ATTAGACTATCCGTTTTTCTTAACTGAGCTTAGTTTAATGATTGAATATGGCCAAGTTAAGGCGAAATTAGGAACAGAGT
TAGATATATATGCTGATGAGAAGTGGGAGGATTTTTTTACAAAATTAGCTAGAGCGACCCAGTTAATCCAACCCGTTATT
TTTATTTTTGTAGCTCTTATCATTGTTATGATTTATGCAGCAATGCTGTTACCAATGTATCAAAATATGGAGATATTATC
ATGA

Domains

Predicted by InterproScan.

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

(34-150)

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

(218-338)


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

62.17

98.271

0.611
  comYB Streptococcus mutans UA159

61.877

98.271

0.608
  comYB Streptococcus gordonii str. Challis substr. CH1

56.305

98.271

0.553
  comGB/cglB Streptococcus mitis NCTC 12261

55.224

96.542

0.533
  comGB/cglB Streptococcus mitis SK321

54.627

96.542

0.527
  comGB/cglB Streptococcus pneumoniae Rx1

53.731

96.542

0.519
  comGB/cglB Streptococcus pneumoniae D39

53.731

96.542

0.519
  comGB/cglB Streptococcus pneumoniae R6

53.731

96.542

0.519
  comGB/cglB Streptococcus pneumoniae TIGR4

53.731

96.542

0.519
  comGB Lactococcus lactis subsp. cremoris KW2

50.148

97.118

0.487