Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   I6J12_RS00035 Genome accession   NZ_CP068060
Coordinates   3544..3972 (+) Length   142 a.a.
NCBI ID   WP_020999411.1    Uniprot ID   -
Organism   Streptococcus anginosus strain FDAARGOS_1155     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 57..6003 3544..3972 within 0


Gene organization within MGE regions


Location: 57..6003
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  I6J12_RS00010 (I6J12_00010) - 845..1387 (+) 543 WP_003038192.1 DUF1366 domain-containing protein -
  I6J12_RS00015 (I6J12_00015) - 1405..1806 (+) 402 WP_003038210.1 hypothetical protein -
  I6J12_RS00020 (I6J12_00020) - 1808..2140 (+) 333 WP_003038184.1 phage holin -
  I6J12_RS00025 (I6J12_00025) - 2143..2892 (+) 750 WP_003038204.1 PlySs2 family phage lysin -
  I6J12_RS00030 (I6J12_00030) comYC 3315..3584 (+) 270 WP_003035361.1 competence type IV pilus major pilin ComGC Machinery gene
  I6J12_RS00035 (I6J12_00035) comYD 3544..3972 (+) 429 WP_020999411.1 competence type IV pilus minor pilin ComGD Machinery gene
  I6J12_RS00040 (I6J12_00040) comGE/cglE 3944..4237 (+) 294 WP_003035318.1 competence type IV pilus minor pilin ComGE Machinery gene
  I6J12_RS00045 (I6J12_00045) comGF/cglF 4221..4658 (+) 438 WP_003035329.1 competence type IV pilus minor pilin ComGF Machinery gene
  I6J12_RS00050 (I6J12_00050) comGG 4639..4965 (+) 327 WP_020999447.1 competence type IV pilus minor pilin ComGG -
  I6J12_RS00055 (I6J12_00055) comYH 5050..6003 (+) 954 WP_003035359.1 class I SAM-dependent methyltransferase Machinery gene

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 16224.69 Da        Isoelectric Point: 10.1968

>NTDB_id=526765 I6J12_RS00035 WP_020999411.1 3544..3972(+) (comYD) [Streptococcus anginosus strain FDAARGOS_1155]
MQNIQKKLAQLQIKGFTLLESLLTLFMTSLLLLAVSGSVRSSFEQVEQQIFFLEFEHFYRESQKLSSAAQSQLDMNFSRE
RISNGYSYLAVPRSIQAPEDLTLHFDKAGGNSSLGKVIFQTKKQTITYQLYLGNGKFKKTIR

Nucleotide


Download         Length: 429 bp        

>NTDB_id=526765 I6J12_RS00035 WP_020999411.1 3544..3972(+) (comYD) [Streptococcus anginosus strain FDAARGOS_1155]
ATGCAAAACATACAAAAGAAGCTCGCACAGTTGCAGATTAAAGGTTTTACGCTTTTGGAAAGTTTGCTGACCTTATTTAT
GACGAGTCTCTTATTGCTTGCTGTGTCAGGTTCAGTACGTTCATCGTTTGAGCAAGTAGAACAGCAAATTTTCTTTCTAG
AGTTTGAGCATTTTTATCGGGAAAGTCAGAAGTTGAGTAGTGCAGCTCAAAGTCAGTTGGACATGAATTTTTCTCGCGAG
AGGATTTCCAATGGTTACAGCTATTTGGCAGTTCCTCGCTCGATTCAGGCTCCGGAAGACCTGACACTTCATTTTGACAA
GGCAGGCGGCAATTCATCGCTCGGAAAGGTTATCTTTCAGACAAAAAAGCAAACAATTACGTATCAATTATATCTAGGAA
ATGGAAAATTTAAGAAAACAATACGTTAG

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

61.94

94.366

0.585
  comGD/cglD Streptococcus mitis NCTC 12261

58.915

90.845

0.535
  comGD/cglD Streptococcus mitis SK321

58.268

89.437

0.521
  comGD/cglD Streptococcus pneumoniae Rx1

58.268

89.437

0.521
  comGD/cglD Streptococcus pneumoniae D39

58.268

89.437

0.521
  comGD/cglD Streptococcus pneumoniae R6

58.268

89.437

0.521
  comGD/cglD Streptococcus pneumoniae TIGR4

57.48

89.437

0.514
  comYD Streptococcus mutans UA140

50

91.549

0.458
  comYD Streptococcus mutans UA159

50

91.549

0.458