Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   SPAF_RS01610 Genome accession   NC_017905
Coordinates   305345..305749 (+) Length   134 a.a.
NCBI ID   WP_003004513.1    Uniprot ID   A0A414PH54
Organism   Streptococcus parasanguinis FW213     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 300345..310749
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPAF_RS01585 (Spaf_0282) - 301329..302432 (+) 1104 WP_014712775.1 glycosyl hydrolase family 8 -
  SPAF_RS01590 (Spaf_0283) - 302658..303050 (+) 393 WP_041826517.1 DUF1033 family protein -
  SPAF_RS01595 (Spaf_0284) comYA 303136..304077 (+) 942 WP_003019098.1 competence type IV pilus ATPase ComGA Machinery gene
  SPAF_RS01600 (Spaf_0286) comYB 304010..305041 (+) 1032 WP_115276785.1 competence type IV pilus assembly protein ComGB Machinery gene
  SPAF_RS01605 (Spaf_0287) comYC 305038..305355 (+) 318 WP_003019171.1 competence type IV pilus major pilin ComGC Machinery gene
  SPAF_RS01610 (Spaf_0288) comYD 305345..305749 (+) 405 WP_003004513.1 competence type IV pilus minor pilin ComGD Machinery gene
  SPAF_RS01615 (Spaf_0289) comGE 305715..306002 (+) 288 WP_041826198.1 competence type IV pilus minor pilin ComGE -
  SPAF_RS01620 (Spaf_0290) comGF/cglF 305992..306444 (+) 453 WP_003019060.1 competence type IV pilus minor pilin ComGF Machinery gene
  SPAF_RS01625 (Spaf_0291) comGG 306401..306868 (+) 468 WP_014712781.1 competence type IV pilus minor pilin ComGG -
  SPAF_RS01630 (Spaf_0292) comYH 306899..307852 (+) 954 WP_014712782.1 class I SAM-dependent methyltransferase Machinery gene
  SPAF_RS01635 (Spaf_0293) - 307904..309097 (+) 1194 WP_013904491.1 acetate kinase -
  SPAF_RS01640 (Spaf_0294) - 309170..309901 (+) 732 WP_014712783.1 type II CAAX endopeptidase family protein -

Sequence

Protein


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

>NTDB_id=51107 SPAF_RS01610 WP_003004513.1 305345..305749(+) (comYD) [Streptococcus parasanguinis FW213]
MQIKAFTLVETLLTLMIVSFIYLGLSGSIKTSFQQVEEKVFFAEFEHLYQESQKIALARQTELDVEVTARKIQTPYQTVE
IPDSVILQDPKTIRLDRAGGNSSLANVHFQTQRGVVTYQLSLGNGKIKKSIRSR

Nucleotide


Download         Length: 405 bp        

>NTDB_id=51107 SPAF_RS01610 WP_003004513.1 305345..305749(+) (comYD) [Streptococcus parasanguinis FW213]
TTGCAGATTAAGGCCTTCACTTTGGTGGAGACCCTTCTGACCTTGATGATCGTTAGTTTTATCTATTTGGGCTTATCGGG
ATCGATCAAGACGAGCTTTCAGCAGGTGGAAGAAAAAGTATTTTTTGCAGAGTTTGAACACCTCTATCAAGAAAGCCAGA
AAATAGCGCTGGCAAGGCAAACGGAATTGGATGTTGAAGTGACTGCAAGGAAGATTCAAACGCCTTATCAGACGGTGGAG
ATTCCTGATTCTGTCATTTTGCAAGATCCTAAAACTATTCGTTTAGACCGTGCAGGTGGCAATTCATCCCTGGCCAATGT
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

Multiple sequence alignment