Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   CMV25_RS04340 Genome accession   NZ_CP023392
Coordinates   874165..875250 (-) Length   361 a.a.
NCBI ID   WP_310592697.1    Uniprot ID   -
Organism   Lactococcus raffinolactis strain WiKim0068     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 869165..880250
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CMV25_RS04295 (CMV25_04295) - 869362..870132 (-) 771 WP_244165990.1 metal ABC transporter ATP-binding protein -
  CMV25_RS04300 (CMV25_04300) - 870132..870581 (-) 450 WP_096039675.1 zinc-dependent MarR family transcriptional regulator -
  CMV25_RS04305 (CMV25_04305) - 870657..871505 (-) 849 WP_096039676.1 aminotransferase class IV -
  CMV25_RS04310 (CMV25_04310) ispE 871589..872440 (-) 852 WP_061774322.1 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase -
  CMV25_RS04315 (CMV25_04315) comGG 872445..872729 (-) 285 WP_096039677.1 competence type IV pilus minor pilin ComGG -
  CMV25_RS04320 (CMV25_04320) comGF 872741..873184 (-) 444 WP_244165991.1 competence type IV pilus minor pilin ComGF -
  CMV25_RS04325 (CMV25_04325) comGE 873159..873464 (-) 306 WP_082785376.1 competence type IV pilus minor pilin ComGE -
  CMV25_RS11735 (CMV25_04330) comGD 873436..873921 (-) 486 WP_341865229.1 competence type IV pilus minor pilin ComGD -
  CMV25_RS04335 (CMV25_04335) comYC 873836..874156 (-) 321 WP_061774318.1 competence type IV pilus major pilin ComGC Machinery gene
  CMV25_RS04340 (CMV25_04340) comYB 874165..875250 (-) 1086 WP_310592697.1 competence type IV pilus assembly protein ComGB Machinery gene
  CMV25_RS04345 (CMV25_04345) comGA/cglA/cilD 875132..876073 (-) 942 WP_061774317.1 competence type IV pilus ATPase ComGA Machinery gene
  CMV25_RS04350 (CMV25_04350) - 876136..877980 (-) 1845 WP_096039681.1 acyltransferase family protein -
  CMV25_RS04355 (CMV25_04355) - 877977..878339 (-) 363 WP_096039682.1 hypothetical protein -

Sequence

Protein


Download         Length: 361 a.a.        Molecular weight: 41434.26 Da        Isoelectric Point: 10.0964

>NTDB_id=246597 CMV25_RS04340 WP_310592697.1 874165..875250(-) (comYB) [Lactococcus raffinolactis strain WiKim0068]
MLKKHSKGMPTTSGMPKLKNWLQKDISHLIRRQPKRLAIKQQVKLMQLMNNLFLSGFHLAEIVNFLSRSKLVEERFVATM
RDGLSNGQNLSQILNDLRFSNLVVTQVALADYHGDTQQTLTLIIDNLTKIQKVRKKLVAVSTYPIILLTFLIIIVLGLKT
YLLPQVETDSFAGTVINALPLIFIGLSLVLTFFALGLIRYFKSTSPLANVQWLGRLPLIRSYLKLYLTAFYAREWGNLVK
QGLEMRQILEMMTSQQNLLFREIGQDIRRAMQVGEEFHDKIKQYSFFTPELALIIEYGEMKGKLGDELLIYSDESWTKFF
EKVESAMNVIQPLVFLFVALMIVLIYAAMLLPIYAQMDLGM

Nucleotide


Download         Length: 1086 bp        

>NTDB_id=246597 CMV25_RS04340 WP_310592697.1 874165..875250(-) (comYB) [Lactococcus raffinolactis strain WiKim0068]
GTGCTGAAAAAGCATTCGAAAGGCATGCCAACGACAAGTGGCATGCCAAAATTGAAAAATTGGTTACAGAAGGACATCTC
ACACCTGATCAGGCGACAGCCGAAAAGGTTAGCGATTAAGCAACAAGTGAAGCTGATGCAGTTGATGAATAACCTCTTTT
TGAGTGGTTTTCATTTAGCAGAAATTGTTAATTTTTTGAGCCGCTCGAAGCTAGTGGAGGAGAGATTTGTTGCGACTATG
CGAGATGGCTTATCGAATGGTCAAAATCTCTCACAAATCTTAAATGATTTACGTTTTTCAAACTTAGTCGTCACACAAGT
TGCTTTAGCAGATTACCATGGTGATACCCAGCAAACACTGACATTAATAATAGATAATTTAACAAAAATTCAGAAGGTTC
GAAAAAAATTGGTGGCTGTATCGACCTATCCCATCATCTTGTTAACTTTTCTAATCATCATCGTACTGGGATTAAAAACC
TATTTGCTACCCCAAGTTGAAACGGATAGTTTTGCGGGCACTGTGATCAATGCCTTACCTTTGATTTTTATCGGGTTGAG
CCTCGTGTTAACATTTTTTGCGTTAGGACTGATTCGGTATTTCAAATCAACATCACCATTGGCTAATGTCCAATGGTTAG
GTCGTCTTCCCTTGATCCGATCGTACTTAAAGCTTTATCTGACAGCGTTTTATGCGCGAGAGTGGGGAAACTTGGTTAAG
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

50.588

94.183

0.476
  comGB Lactococcus lactis subsp. cremoris KW2

49.267

94.46

0.465
  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