Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   G3T13_RS09890 Genome accession   NZ_CP048686
Coordinates   2008584..2009669 (+) Length   361 a.a.
NCBI ID   WP_306301678.1    Uniprot ID   -
Organism   Lactococcus raffinolactis strain KACC 13441     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2003584..2014669
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  G3T13_RS09875 - 2005495..2005857 (+) 363 WP_061774315.1 hypothetical protein -
  G3T13_RS09880 - 2005854..2007698 (+) 1845 WP_061774316.1 acyltransferase family protein -
  G3T13_RS09885 comGA/cglA/cilD 2007761..2008702 (+) 942 WP_061774317.1 competence type IV pilus ATPase ComGA Machinery gene
  G3T13_RS09890 comYB 2008584..2009669 (+) 1086 WP_306301678.1 competence type IV pilus assembly protein ComGB Machinery gene
  G3T13_RS09895 comYC 2009693..2009998 (+) 306 WP_174519819.1 competence type IV pilus major pilin ComGC Machinery gene
  G3T13_RS11680 comGD 2009949..2010398 (+) 450 WP_275575940.1 competence type IV pilus minor pilin ComGD -
  G3T13_RS09905 comGE 2010370..2010675 (+) 306 WP_082785376.1 competence type IV pilus minor pilin ComGE -
  G3T13_RS09910 - 2010824..2011093 (+) 270 WP_239519114.1 competence type IV pilus minor pilin ComGF -
  G3T13_RS09915 comGG 2011105..2011389 (+) 285 WP_061774321.1 competence type IV pilus minor pilin ComGG -
  G3T13_RS09920 ispE 2011394..2012245 (+) 852 WP_061774322.1 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase -
  G3T13_RS09925 - 2012329..2013177 (+) 849 WP_061774323.1 aminotransferase class IV -
  G3T13_RS09930 - 2013253..2013702 (+) 450 WP_061774324.1 zinc-dependent MarR family transcriptional regulator -
  G3T13_RS09935 - 2013702..2014472 (+) 771 WP_061774325.1 metal ABC transporter ATP-binding protein -

Sequence

Protein


Download         Length: 361 a.a.        Molecular weight: 41533.40 Da        Isoelectric Point: 10.0964

>NTDB_id=422298 G3T13_RS09890 WP_306301678.1 2008584..2009669(+) (comYB) [Lactococcus raffinolactis strain KACC 13441]
MLKKHSKGMPTTSGMPKLKNWLQKDISHLIRRQPKRLAIKQQVKLMQLMNNLFLSGFHLAEIVNFLSRSKLVEERFVATM
RDGLSNGQNLSQILNDLRFSNLVVTQVALADYHGDTQQTLTLIIDNLTKIQKVRKKLVAVSTYPIILLTFLIIIVLGLKT
YLLPQVETDSFAGTVINALPLIFIGLSLVLTFFALGLIRYFKSTSPLANVQWLGRLPLIRWYLKLYLTAFYAREWGNLVK
QGLEMRQILEMMTSQQNLLFREIGQDIRRAMQVGEEFHDKIKQYSFFTPELALIIEYGEMKGKLGDELLIYSDESWTKFF
EKVESAMNVIQPLVFLFVALMIVLIYAAMLLPIYAQMDLGM

Nucleotide


Download         Length: 1086 bp        

>NTDB_id=422298 G3T13_RS09890 WP_306301678.1 2008584..2009669(+) (comYB) [Lactococcus raffinolactis strain KACC 13441]
GTGCTGAAAAAGCATTCGAAAGGCATGCCAACGACAAGTGGCATGCCAAAATTGAAAAATTGGTTACAGAAGGACATCTC
ACACCTGATCAGGCGACAGCCGAAAAGGTTAGCGATTAAGCAACAAGTGAAGCTGATGCAGTTGATGAATAACCTCTTTT
TGAGTGGTTTTCATTTAGCAGAAATTGTTAATTTTTTGAGCCGCTCGAAGCTAGTGGAGGAGAGATTTGTTGCGACTATG
CGAGATGGCTTATCGAATGGTCAAAATCTCTCACAAATCTTAAATGATTTACGTTTTTCAAACTTAGTCGTCACACAAGT
TGCTTTAGCAGATTACCATGGTGATACCCAGCAAACACTGACATTAATAATAGATAATTTAACAAAAATTCAGAAGGTTC
GAAAAAAATTGGTGGCTGTATCGACCTATCCCATCATCTTGTTAACTTTTCTAATCATCATCGTACTGGGATTAAAAACC
TATTTGCTACCCCAAGTTGAAACGGATAGTTTTGCGGGCACTGTGATCAATGCCTTACCTTTGATTTTTATCGGGTTGAG
CCTCGTGTTAACATTTTTTGCGTTAGGACTGATTCGATATTTCAAATCAACATCACCATTGGCTAATGTCCAATGGTTAG
GTCGTCTTCCCTTGATCCGATGGTACTTAAAGCTTTATCTGACAGCGTTTTATGCGCGAGAGTGGGGAAACTTGGTTAAG
CAAGGTTTGGAGATGCGACAAATATTGGAGATGATGACCAGCCAACAGAATCTACTTTTTCGTGAAATTGGTCAAGATAT
AAGGCGGGCTATGCAAGTGGGGGAAGAATTTCACGACAAGATTAAGCAATACAGCTTTTTCACACCGGAGTTGGCCCTCA
TCATCGAATATGGTGAAATGAAGGGCAAATTAGGTGATGAATTACTCATCTATTCGGATGAATCCTGGACAAAATTTTTT
GAAAAGGTTGAAAGCGCCATGAATGTCATTCAGCCATTGGTTTTTTTGTTTGTCGCTTTGATGATTGTTTTAATCTATGC
AGCTATGTTGCTACCTATTTATGCTCAGATGGATCTGGGCATGTAG

Domains

Predicted by InterproScan.

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

(47-164)

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

(232-352)


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

50.725

95.568

0.485
  comYB Streptococcus mutans UA159

50.725

95.568

0.485
  comYB Streptococcus gordonii str. Challis substr. CH1

50.294

94.183

0.474
  comGB Lactococcus lactis subsp. cremoris KW2

48.974

94.46

0.463
  comGB/cglB Streptococcus pneumoniae R6

47.164

92.798

0.438
  comGB/cglB Streptococcus pneumoniae TIGR4

47.164

92.798

0.438
  comGB/cglB Streptococcus mitis NCTC 12261

47.164

92.798

0.438
  comGB/cglB Streptococcus pneumoniae Rx1

47.164

92.798

0.438
  comGB/cglB Streptococcus pneumoniae D39

47.164

92.798

0.438
  comGB/cglB Streptococcus mitis SK321

46.567

92.798

0.432

Multiple sequence alignment