Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   RDV49_RS01235 Genome accession   NZ_CP133988
Coordinates   261371..261775 (-) Length   134 a.a.
NCBI ID   WP_003004513.1    Uniprot ID   A0A414PH54
Organism   Streptococcus parasanguinis strain B-1756     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 256371..266775
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV49_RS01205 (RDV49_01205) - 257219..257950 (-) 732 WP_037608245.1 CPBP family intramembrane glutamic endopeptidase -
  RDV49_RS01210 (RDV49_01210) - 258023..259216 (-) 1194 WP_003009777.1 acetate kinase -
  RDV49_RS01215 (RDV49_01215) comYH 259268..260221 (-) 954 WP_003009772.1 class I SAM-dependent methyltransferase Machinery gene
  RDV49_RS01220 (RDV49_01220) comGG 260252..260689 (-) 438 WP_003009770.1 competence type IV pilus minor pilin ComGG -
  RDV49_RS01225 (RDV49_01225) comGF/cglF 260676..261128 (-) 453 WP_003009767.1 competence type IV pilus minor pilin ComGF Machinery gene
  RDV49_RS01230 (RDV49_01230) comGE 261118..261405 (-) 288 WP_003004353.1 competence type IV pilus minor pilin ComGE -
  RDV49_RS01235 (RDV49_01235) comYD 261371..261775 (-) 405 WP_003004513.1 competence type IV pilus minor pilin ComGD Machinery gene
  RDV49_RS01240 (RDV49_01240) comYC 261765..262082 (-) 318 WP_003009763.1 competence type IV pilus major pilin ComGC Machinery gene
  RDV49_RS01245 (RDV49_01245) comYB 262079..263110 (-) 1032 WP_182448484.1 competence type IV pilus assembly protein ComGB Machinery gene
  RDV49_RS01250 (RDV49_01250) comYA 263043..263984 (-) 942 WP_003009757.1 competence type IV pilus ATPase ComGA Machinery gene
  RDV49_RS01255 (RDV49_01255) - 264072..264461 (-) 390 WP_037608454.1 DUF1033 family protein -
  RDV49_RS01260 (RDV49_01260) - 264671..265774 (-) 1104 WP_003009752.1 glycosyl hydrolase family 8 -

Sequence

Protein


Download         Length: 134 a.a.        Molecular weight: 15164.50 Da        Isoelectric Point: 9.7563

>NTDB_id=878146 RDV49_RS01235 WP_003004513.1 261371..261775(-) (comYD) [Streptococcus parasanguinis strain B-1756]
MQIKAFTLVETLLTLMIVSFIYLGLSGSIKTSFQQVEEKVFFAEFEHLYQESQKIALARQTELDVEVTARKIQTPYQTVE
IPDSVILQDPKTIRLDRAGGNSSLANVHFQTQRGVVTYQLSLGNGKIKKSIRSR

Nucleotide


Download         Length: 405 bp        

>NTDB_id=878146 RDV49_RS01235 WP_003004513.1 261371..261775(-) (comYD) [Streptococcus parasanguinis strain B-1756]
TTGCAGATTAAGGCCTTCACCTTGGTGGAGACTCTTCTGACCTTGATGATCGTCAGTTTTATCTATCTGGGCTTATCGGG
ATCGATCAAGACGAGCTTTCAGCAGGTGGAAGAAAAAGTATTTTTTGCAGAGTTTGAACACCTCTATCAAGAAAGCCAGA
AAATAGCGCTGGCAAGGCAAACGGAATTGGATGTTGAAGTGACTGCAAGGAAGATTCAAACGCCTTACCAGACGGTGGAG
ATTCCTGATTCTGTCATTTTGCAAGATCCTAAAACTATTCGTTTAGACCGAGCAGGTGGCAATTCATCCCTGGCCAATGT
TCACTTTCAGACACAGAGAGGAGTGGTGACCTATCAACTGTCGCTTGGAAATGGGAAAATTAAAAAAAGCATCCGTTCCC
GCTAG

Domains


No domain identified.



Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A414PH54

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