Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   SON02_RS05630 Genome accession   NZ_CP139211
Coordinates   1316823..1317851 (-) Length   342 a.a.
NCBI ID   WP_135027184.1    Uniprot ID   -
Organism   Streptococcus sp. LysM4     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1311823..1322851
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SON02_RS05595 (SON02_05580) - 1312811..1314001 (-) 1191 WP_135027173.1 acetate kinase -
  SON02_RS05600 (SON02_05585) comYH 1314051..1315004 (-) 954 WP_135027174.1 class I SAM-dependent methyltransferase Machinery gene
  SON02_RS05605 (SON02_05590) comGG 1315027..1315422 (-) 396 WP_135027176.1 competence type IV pilus minor pilin ComGG -
  SON02_RS05610 (SON02_05595) comYF 1315433..1315867 (-) 435 WP_135027179.1 competence type IV pilus minor pilin ComGF Machinery gene
  SON02_RS05615 (SON02_05600) comGE 1315854..1316108 (-) 255 WP_228063764.1 competence type IV pilus minor pilin ComGE -
  SON02_RS05620 (SON02_05605) comGD 1316119..1316496 (-) 378 WP_373273837.1 competence type IV pilus minor pilin ComGD -
  SON02_RS05625 (SON02_05610) comGC/cglC 1316507..1316821 (-) 315 WP_135027183.1 competence type IV pilus major pilin ComGC Machinery gene
  SON02_RS05630 (SON02_05615) comYB 1316823..1317851 (-) 1029 WP_135027184.1 competence type IV pilus assembly protein ComGB Machinery gene
  SON02_RS05635 (SON02_05620) comGA/cglA/cilD 1317772..1318722 (-) 951 WP_135027186.1 competence type IV pilus ATPase ComGA Machinery gene
  SON02_RS05640 (SON02_05625) - 1318892..1319254 (-) 363 WP_135027188.1 DUF1033 family protein -

Sequence

Protein


Download         Length: 342 a.a.        Molecular weight: 39285.72 Da        Isoelectric Point: 9.2445

>NTDB_id=908057 SON02_RS05630 WP_135027184.1 1316823..1317851(-) (comYB) [Streptococcus sp. LysM4]
MTDFLQQDISVFVKRRPKKLSLTRQRKIIALFTNLFTSGFHLVEIVDFLKRSQLLADSYTSILSRGLMTGKSFAALLSDL
QFSDVVVTQVSLAEVHGNLELSLTNIQDYLGNFIKVRKKLVEVATYPVILLGFLLAIMLGLNSYLLPQLEERNGVTRIMD
YLPIVFLASVVASLVLVVLLKYWYRKSEKIRAVSLLVRLPFLGRLIQLYLTAYYAREWGNLIGQGLEMPRIIHLMQEQQS
ALFCSIGTELGLALDKGIAFEEHVKRYPFFKKELSLMIEYGQVKDKLGHELRLYADECWEEFFVRLTASMQLIQPLVFMF
VALLIVLIYAAMLLPIYQHMEV

Nucleotide


Download         Length: 1029 bp        

>NTDB_id=908057 SON02_RS05630 WP_135027184.1 1316823..1317851(-) (comYB) [Streptococcus sp. LysM4]
TTGACAGACTTTTTACAGCAGGACATATCAGTGTTCGTCAAGCGCAGGCCGAAAAAATTATCTTTGACTCGTCAGCGTAA
GATTATCGCATTATTCACTAATCTGTTTACGAGTGGTTTTCACTTGGTAGAAATTGTTGATTTCTTAAAAAGAAGTCAAT
TACTAGCAGATAGTTATACTAGTATTTTATCCAGAGGGTTGATGACTGGAAAATCTTTCGCAGCTCTTCTTTCGGATCTG
CAATTTTCAGACGTAGTTGTAACCCAAGTATCCTTGGCAGAAGTACATGGGAATTTGGAGTTAAGCTTGACAAACATTCA
AGATTACTTAGGAAATTTTATAAAAGTGCGTAAAAAACTAGTTGAAGTAGCCACCTATCCAGTGATATTGTTAGGATTTT
TGCTTGCGATTATGCTGGGATTAAATAGTTATCTCTTACCTCAATTAGAAGAGAGGAATGGAGTTACGAGGATAATGGAT
TATCTTCCAATTGTTTTTCTAGCATCGGTTGTTGCTAGTTTGGTTTTGGTAGTGCTACTGAAGTATTGGTACCGGAAATC
TGAGAAAATAAGGGCAGTCAGTCTACTAGTACGATTGCCATTTTTAGGGAGGTTGATTCAGCTGTATCTCACGGCTTATT
ATGCGCGTGAATGGGGGAATCTCATCGGTCAAGGTCTTGAAATGCCTCGGATTATTCACTTGATGCAAGAGCAACAATCT
GCTTTGTTTTGCAGTATCGGGACGGAGCTGGGACTAGCCTTAGACAAGGGGATTGCCTTTGAAGAGCATGTTAAGCGCTA
TCCTTTTTTCAAGAAGGAGTTAAGTCTCATGATTGAATATGGTCAAGTTAAAGATAAGTTAGGACATGAGTTACGACTGT
ATGCTGATGAATGTTGGGAGGAATTTTTTGTGAGGCTGACTGCTTCCATGCAGCTCATTCAACCACTTGTATTTATGTTT
GTCGCCTTGCTTATTGTCTTAATTTATGCAGCGATGTTGCTACCAATCTATCAACACATGGAGGTTTAA

Domains

Predicted by InterproScan.

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

(215-335)

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

(32-147)


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

57.227

99.123

0.567
  comYB Streptococcus mutans UA159

57.227

99.123

0.567
  comYB Streptococcus gordonii str. Challis substr. CH1

56.433

100

0.564
  comGB/cglB Streptococcus mitis NCTC 12261

56.418

97.953

0.553
  comGB/cglB Streptococcus mitis SK321

56.119

97.953

0.55
  comGB/cglB Streptococcus pneumoniae Rx1

55.821

97.953

0.547
  comGB/cglB Streptococcus pneumoniae D39

55.821

97.953

0.547
  comGB/cglB Streptococcus pneumoniae R6

55.821

97.953

0.547
  comGB/cglB Streptococcus pneumoniae TIGR4

55.821

97.953

0.547
  comGB Lactococcus lactis subsp. cremoris KW2

49.112

98.83

0.485