Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYA   Type   Machinery gene
Locus tag   LPB404_RS01900 Genome accession   NZ_CP079821
Coordinates   372584..373543 (+) Length   319 a.a.
NCBI ID   WP_219074902.1    Uniprot ID   -
Organism   Streptococcus rubneri strain LPB0404     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 367584..378543
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPB404_RS01890 (LPB404_01890) rpoC 368243..371896 (+) 3654 WP_219074900.1 DNA-directed RNA polymerase subunit beta' -
  LPB404_RS01895 (LPB404_01895) - 372102..372479 (+) 378 WP_219074901.1 DUF1033 family protein -
  LPB404_RS01900 (LPB404_01900) comYA 372584..373543 (+) 960 WP_219074902.1 competence type IV pilus ATPase ComGA Machinery gene
  LPB404_RS01905 (LPB404_01905) comYB 373467..374489 (+) 1023 WP_257573088.1 competence type IV pilus assembly protein ComGB Machinery gene
  LPB404_RS01910 (LPB404_01910) comGC/cglC 374486..374803 (+) 318 WP_219074903.1 competence type IV pilus major pilin ComGC Machinery gene
  LPB404_RS01915 (LPB404_01915) comGD/cglD 374793..375197 (+) 405 WP_219075204.1 competence type IV pilus minor pilin ComGD Machinery gene
  LPB404_RS01920 (LPB404_01920) comGE 375163..375456 (+) 294 WP_219074904.1 competence type IV pilus minor pilin ComGE -
  LPB404_RS01925 (LPB404_01925) comGF/cglF 375440..375892 (+) 453 WP_219075203.1 competence type IV pilus minor pilin ComGF Machinery gene
  LPB404_RS01930 (LPB404_01930) comGG 375921..376304 (+) 384 WP_374030902.1 competence type IV pilus minor pilin ComGG -
  LPB404_RS01935 (LPB404_01935) comYH 376336..377289 (+) 954 WP_120701351.1 class I SAM-dependent methyltransferase Machinery gene
  LPB404_RS01940 (LPB404_01940) - 377338..378534 (+) 1197 WP_219074906.1 acetate kinase -

Sequence

Protein


Download         Length: 319 a.a.        Molecular weight: 36342.59 Da        Isoelectric Point: 6.1813

>NTDB_id=589728 LPB404_RS01900 WP_219074902.1 372584..373543(+) (comYA) [Streptococcus rubneri strain LPB0404]
MVQEIAQSIIRMASSAEAQDIYFVPRASDYHLFLRVGDERRFVEIYSQEQMVAVISHFKFMAGMNVGERRRSQLGSCDYS
LGDKILSLRLSTVGDYRGYESLVIRLLHNEDRELRFWFDQLQELEDKVSKRGLYLFAGPVGSGKTTLMHALAKKKFSGQQ
VMSIEDPVEIKQEEMLQLQLNEAIGMTYDSLIKLSLRHRPDLLLIGEIRDTETARAVIRASLTGVTVFSTIHAKSIPGVY
ERLLELGVSEEELRIVLQGICYQRLIKGGGVTDFVIQDYQNHSSHKWNQQIDALYEAGHIELDQAQAEKIIDCQARACH

Nucleotide


Download         Length: 960 bp        

>NTDB_id=589728 LPB404_RS01900 WP_219074902.1 372584..373543(+) (comYA) [Streptococcus rubneri strain LPB0404]
ATGGTTCAAGAAATTGCACAATCCATTATTCGAATGGCATCGAGTGCCGAAGCTCAGGATATTTATTTTGTTCCTCGAGC
GTCAGACTATCATCTCTTTCTAAGGGTTGGGGATGAGCGACGGTTTGTTGAGATCTATTCGCAAGAACAAATGGTAGCGG
TCATCAGCCATTTTAAATTTATGGCAGGGATGAACGTGGGGGAGAGGCGGAGGAGTCAGCTAGGCTCCTGTGACTATTCT
CTAGGAGATAAGATCTTGTCTTTACGCTTGTCCACAGTGGGAGACTATAGGGGATATGAAAGTTTGGTTATTCGCCTGCT
CCACAATGAGGACCGAGAACTCCGTTTCTGGTTCGACCAACTGCAAGAGCTAGAAGACAAGGTCAGTAAGCGGGGGCTCT
ACTTATTTGCGGGTCCAGTCGGATCGGGGAAGACGACACTGATGCATGCTCTGGCTAAGAAAAAATTTTCAGGGCAACAA
GTCATGTCGATTGAAGATCCGGTAGAAATTAAGCAAGAAGAAATGTTGCAATTGCAACTCAATGAAGCGATTGGCATGAC
CTATGATAGCTTGATTAAGCTTTCTCTACGCCATCGTCCGGATCTTCTCCTTATCGGAGAAATCCGTGACACCGAGACAG
CTCGTGCAGTTATTCGGGCTAGTCTGACAGGTGTGACAGTCTTTTCCACCATTCATGCCAAGAGCATCCCTGGGGTGTAC
GAACGCCTATTGGAGTTGGGGGTGAGTGAGGAGGAGTTACGGATTGTCCTTCAAGGGATATGTTACCAGCGTTTAATAAA
GGGAGGAGGTGTCACTGACTTTGTTATCCAAGATTACCAAAACCACTCCAGTCACAAGTGGAACCAGCAAATTGATGCAC
TTTATGAAGCGGGACATATTGAGTTGGATCAGGCGCAAGCCGAAAAAATTATCGATTGCCAAGCAAGAGCATGTCATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(10-266)


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
  comYA Streptococcus gordonii str. Challis substr. CH1

73.668

100

0.737
  comGA/cglA/cilD Streptococcus mitis NCTC 12261

72.903

97.179

0.708
  comGA/cglA/cilD Streptococcus pneumoniae D39

72.581

97.179

0.705
  comGA/cglA/cilD Streptococcus pneumoniae R6

72.581

97.179

0.705
  comGA/cglA/cilD Streptococcus pneumoniae TIGR4

72.581

97.179

0.705
  comGA/cglA/cilD Streptococcus pneumoniae Rx1

72.581

97.179

0.705
  comYA Streptococcus mutans UA159

64.537

98.119

0.633
  comYA Streptococcus mutans UA140

64.537

98.119

0.633
  comGA/cglA Streptococcus sobrinus strain NIDR 6715-7

61.859

97.806

0.605
  comGA Lactococcus lactis subsp. cremoris KW2

55.696

99.06

0.552
  comGA Latilactobacillus sakei subsp. sakei 23K

41.877

86.834

0.364