Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   SM123_RS09965 Genome accession   NZ_CP139419
Coordinates   2058709..2059113 (-) Length   134 a.a.
NCBI ID   WP_269796580.1    Uniprot ID   -
Organism   Streptococcus lingualis strain S5     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2053709..2064113
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SM123_RS09935 (SM123_09935) - 2054557..2055288 (-) 732 WP_320909533.1 type II CAAX endopeptidase family protein -
  SM123_RS09940 (SM123_09940) - 2055361..2056554 (-) 1194 WP_023919646.1 acetate kinase -
  SM123_RS09945 (SM123_09945) comYH 2056606..2057559 (-) 954 WP_049505971.1 class I SAM-dependent methyltransferase Machinery gene
  SM123_RS09950 (SM123_09950) comGG 2057590..2058057 (-) 468 WP_320909534.1 competence type IV pilus minor pilin ComGG -
  SM123_RS09955 (SM123_09955) comGF/cglF 2058014..2058466 (-) 453 WP_151190960.1 competence type IV pilus minor pilin ComGF Machinery gene
  SM123_RS09960 (SM123_09960) comGE 2058456..2058743 (-) 288 WP_151190959.1 competence type IV pilus minor pilin ComGE -
  SM123_RS09965 (SM123_09965) comYD 2058709..2059113 (-) 405 WP_269796580.1 competence type IV pilus minor pilin ComGD Machinery gene
  SM123_RS09970 (SM123_09970) comYC 2059103..2059420 (-) 318 WP_101770912.1 competence type IV pilus major pilin ComGC Machinery gene
  SM123_RS09975 (SM123_09975) comYB 2059417..2060448 (-) 1032 WP_320910010.1 competence type IV pilus assembly protein ComGB Machinery gene
  SM123_RS09980 (SM123_09980) comYA 2060381..2061322 (-) 942 WP_320909535.1 competence type IV pilus ATPase ComGA Machinery gene
  SM123_RS09985 (SM123_09985) - 2061410..2061799 (-) 390 WP_037608454.1 DUF1033 family protein -
  SM123_RS09990 (SM123_09990) - 2062020..2063123 (-) 1104 WP_049475202.1 glycosyl hydrolase family 8 -

Sequence

Protein


Download         Length: 134 a.a.        Molecular weight: 15134.47 Da        Isoelectric Point: 9.7563

>NTDB_id=909568 SM123_RS09965 WP_269796580.1 2058709..2059113(-) (comYD) [Streptococcus lingualis strain S5]
MQIKAFTLVETLLTLMIVSFIYLGLSGSIKTSFQQVEEKVFFAEFEHLYQESQKIALARQTELDVEVTARKIQTPYQAVE
IPDSVILQDPKTIRLDRAGGNSSLANVHFQTQRGVVTYQLSLGNGKIKKSIRSR

Nucleotide


Download         Length: 405 bp        

>NTDB_id=909568 SM123_RS09965 WP_269796580.1 2058709..2059113(-) (comYD) [Streptococcus lingualis strain S5]
TTGCAGATTAAGGCCTTCACCTTGGTGGAGACCCTTCTGACCTTGATGATCGTCAGTTTTATCTATCTGGGCTTATCGGG
ATCGATCAAGACGAGCTTTCAGCAGGTGGAAGAAAAAGTATTTTTTGCAGAGTTTGAACACCTCTATCAAGAAAGCCAAA
AGATAGCATTGGCAAGGCAAACGGAATTGGATGTTGAAGTGACTGCAAGGAAGATTCAAACGCCCTATCAGGCGGTGGAG
ATTCCTGATTCTGTTATTTTGCAAGATCCTAAAACTATTCGTTTAGACCGAGCAGGTGGCAATTCATCCCTGGCCAATGT
TCACTTTCAGACACAGAGAGGAGTGGTGACCTATCAACTGTCGCTTGGAAATGGAAAAATTAAAAAAAGCATCCGTTCCC
GCTAG

Domains


No domain identified.



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
  comYD Streptococcus gordonii str. Challis substr. CH1

50

97.015

0.485
  comGD/cglD Streptococcus mitis NCTC 12261

48.837

96.269

0.47
  comGD/cglD Streptococcus pneumoniae Rx1

48.819

94.776

0.463
  comGD/cglD Streptococcus pneumoniae D39

48.819

94.776

0.463
  comGD/cglD Streptococcus pneumoniae R6

48.819

94.776

0.463
  comGD/cglD Streptococcus mitis SK321

48.819

94.776

0.463
  comGD/cglD Streptococcus pneumoniae TIGR4

48.031

94.776

0.455
  comYD Streptococcus mutans UA140

44.615

97.015

0.433
  comYD Streptococcus mutans UA159

44.615

97.015

0.433