Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   DQM54_RS09565 Genome accession   NZ_LS483375
Coordinates   1933242..1934276 (-) Length   344 a.a.
NCBI ID   WP_111724181.1    Uniprot ID   -
Organism   Streptococcus gordonii strain NCTC3165     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1928242..1939276
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DQM54_RS09525 (NCTC3165_01894) - 1928507..1929172 (-) 666 WP_111724177.1 CPBP family intramembrane glutamic endopeptidase -
  DQM54_RS09530 (NCTC3165_01895) - 1929218..1930408 (-) 1191 WP_045634156.1 acetate kinase -
  DQM54_RS09535 (NCTC3165_01896) comYH 1930458..1931411 (-) 954 WP_111724178.1 class I SAM-dependent methyltransferase Machinery gene
  DQM54_RS09540 (NCTC3165_01897) comGG 1931442..1931870 (-) 429 WP_111724318.1 competence type IV pilus minor pilin ComGG -
  DQM54_RS09545 (NCTC3165_01898) comGF/cglF 1931854..1932291 (-) 438 WP_111724179.1 competence type IV pilus minor pilin ComGF Machinery gene
  DQM54_RS09550 (NCTC3165_01899) comGE/cglE 1932275..1932568 (-) 294 WP_111724180.1 competence type IV pilus minor pilin ComGE Machinery gene
  DQM54_RS09555 (NCTC3165_01900) comYD 1932540..1932968 (-) 429 WP_012130939.1 competence type IV pilus minor pilin ComGD Machinery gene
  DQM54_RS09560 (NCTC3165_01901) comYC 1932928..1933245 (-) 318 WP_012130940.1 competence type IV pilus major pilin ComGC Machinery gene
  DQM54_RS09565 (NCTC3165_01902) comYB 1933242..1934276 (-) 1035 WP_111724181.1 competence type IV pilus assembly protein ComGB Machinery gene
  DQM54_RS09570 (NCTC3165_01903) comYA 1934209..1935147 (-) 939 WP_111724182.1 competence type IV pilus ATPase ComGA Machinery gene
  DQM54_RS09575 (NCTC3165_01904) - 1935250..1935618 (-) 369 WP_046164737.1 DUF1033 family protein -

Sequence

Protein


Download         Length: 344 a.a.        Molecular weight: 39139.22 Da        Isoelectric Point: 9.1924

>NTDB_id=1139151 DQM54_RS09565 WP_111724181.1 1933242..1934276(-) (comYB) [Streptococcus gordonii strain NCTC3165]
MINFLQQDISILSKQKQKKLGTSKQKQVIELFNNLFSSGFHLAETVDFLGRSALLEKNYVQQMRQGLANGQAFSEIMASL
GFSDAVVTQLSLAELHGNLSLALLKIEEYLDNLAKVKKKLIEVATYPMMLLGFLVLIMMGLRNYLLPQLSSQNFATQLIG
HLPTIFLLTVLILLGLTGAIYLVFKGQKRIPVYSFLARLPFLGSFVRIYLTAYYAREWGNMIGQGLELSQIFQIMQEQRS
VLFQEIGQDLGQALQNGQEFSDKIASYPFFKKELSLIIEYGEVKSKLGSELEIYALKTWEEFFSRVNRTMNLIQPLVFVF
VALMIVLLYAAMLLPLYQNMEVHL

Nucleotide


Download         Length: 1035 bp        

>NTDB_id=1139151 DQM54_RS09565 WP_111724181.1 1933242..1934276(-) (comYB) [Streptococcus gordonii strain NCTC3165]
TTGATCAACTTCTTGCAGCAGGACATATCAATCCTGAGCAAGCAGAAGCAGAAAAAATTAGGAACTAGCAAGCAAAAGCA
GGTCATTGAACTGTTTAATAATTTATTCTCTAGCGGTTTTCACTTGGCTGAGACTGTGGACTTTTTAGGTCGAAGCGCTC
TTTTGGAGAAGAACTATGTCCAGCAAATGCGTCAGGGTCTGGCTAATGGACAAGCATTTTCAGAGATTATGGCTAGTCTA
GGATTTTCTGATGCAGTAGTAACCCAGCTGTCATTGGCTGAGTTACATGGGAATTTATCGCTTGCCTTGCTAAAAATAGA
GGAATATCTGGATAATCTTGCGAAGGTAAAAAAGAAGTTAATTGAAGTAGCGACCTATCCCATGATGCTGCTTGGCTTTT
TGGTATTGATTATGATGGGATTGAGAAATTACCTTTTACCCCAACTCAGCAGTCAAAATTTTGCCACTCAACTCATTGGC
CATTTACCGACTATTTTTCTACTAACTGTCTTAATTTTACTTGGATTAACAGGAGCGATTTATCTGGTATTCAAAGGTCA
GAAACGGATTCCTGTATACTCTTTCTTGGCCCGCTTGCCTTTTCTTGGATCTTTTGTAAGGATTTACCTAACTGCCTATT
ATGCGCGTGAATGGGGCAATATGATTGGGCAAGGCTTGGAGCTCAGTCAGATTTTTCAGATTATGCAAGAGCAACGCTCG
GTTTTATTTCAGGAAATTGGTCAGGATTTGGGTCAAGCCTTACAAAACGGTCAAGAATTTTCAGATAAAATTGCTTCGTA
TCCTTTTTTCAAAAAGGAATTGTCTCTAATCATCGAATATGGGGAAGTCAAATCCAAGCTGGGAAGTGAACTAGAAATTT
ATGCCCTTAAGACTTGGGAAGAATTTTTTAGTAGGGTCAATCGGACCATGAATCTGATTCAGCCCCTAGTATTTGTCTTT
GTAGCCTTGATGATTGTCTTATTGTATGCGGCAATGCTATTGCCCCTTTATCAAAATATGGAGGTTCATCTATGA

Domains

Predicted by InterproScan.

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

(30-147)

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

(215-335)


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 gordonii str. Challis substr. CH1

98.547

100

0.985
  comGB/cglB Streptococcus mitis NCTC 12261

72.727

99.128

0.721
  comGB/cglB Streptococcus mitis SK321

72.917

97.674

0.712
  comGB/cglB Streptococcus pneumoniae TIGR4

71.131

97.674

0.695
  comGB/cglB Streptococcus pneumoniae R6

71.131

97.674

0.695
  comGB/cglB Streptococcus pneumoniae Rx1

71.131

97.674

0.695
  comGB/cglB Streptococcus pneumoniae D39

71.131

97.674

0.695
  comYB Streptococcus mutans UA140

60.058

99.709

0.599
  comYB Streptococcus mutans UA159

60.058

99.709

0.599
  comGB Lactococcus lactis subsp. cremoris KW2

51.929

97.965

0.509

Multiple sequence alignment