Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   SM121_RS01085 Genome accession   NZ_CP139418
Coordinates   224695..225099 (-) Length   134 a.a.
NCBI ID   WP_003004513.1    Uniprot ID   A0A414PH54
Organism   Streptococcus dentalis strain S1     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 219695..230099
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SM121_RS01055 (SM121_01055) - 220543..221274 (-) 732 WP_320910981.1 type II CAAX endopeptidase family protein -
  SM121_RS01060 (SM121_01060) - 221347..222540 (-) 1194 WP_003004202.1 acetate kinase -
  SM121_RS01065 (SM121_01065) comYH 222592..223545 (-) 954 WP_155127115.1 class I SAM-dependent methyltransferase Machinery gene
  SM121_RS01070 (SM121_01070) comGG 223576..224013 (-) 438 WP_320910982.1 competence type IV pilus minor pilin ComGG -
  SM121_RS01075 (SM121_01075) comGF/cglF 224000..224452 (-) 453 WP_151190960.1 competence type IV pilus minor pilin ComGF Machinery gene
  SM121_RS01080 (SM121_01080) comGE 224442..224729 (-) 288 WP_003004353.1 competence type IV pilus minor pilin ComGE -
  SM121_RS01085 (SM121_01085) comYD 224695..225099 (-) 405 WP_003004513.1 competence type IV pilus minor pilin ComGD Machinery gene
  SM121_RS01090 (SM121_01090) comYC 225089..225406 (-) 318 WP_003013558.1 competence type IV pilus major pilin ComGC Machinery gene
  SM121_RS01095 (SM121_01095) comYB 225403..226434 (-) 1032 WP_320911301.1 competence type IV pilus assembly protein ComGB Machinery gene
  SM121_RS01100 (SM121_01100) comYA 226367..227308 (-) 942 WP_155127112.1 competence type IV pilus ATPase ComGA Machinery gene
  SM121_RS01105 (SM121_01105) - 227396..227785 (-) 390 WP_037615753.1 DUF1033 family protein -
  SM121_RS01110 (SM121_01110) - 228007..229110 (-) 1104 WP_320910983.1 glycosyl hydrolase family 8 -

Sequence

Protein


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

>NTDB_id=909469 SM121_RS01085 WP_003004513.1 224695..225099(-) (comYD) [Streptococcus dentalis strain S1]
MQIKAFTLVETLLTLMIVSFIYLGLSGSIKTSFQQVEEKVFFAEFEHLYQESQKIALARQTELDVEVTARKIQTPYQTVE
IPDSVILQDPKTIRLDRAGGNSSLANVHFQTQRGVVTYQLSLGNGKIKKSIRSR

Nucleotide


Download         Length: 405 bp        

>NTDB_id=909469 SM121_RS01085 WP_003004513.1 224695..225099(-) (comYD) [Streptococcus dentalis strain S1]
TTGCAGATTAAGGCCTTCACTTTGGTGGAGACCCTTCTGACCTTGATGATCGTCAGTTTTATCTATCTGGGCTTATCGGG
ATCGATCAAGACGAGCTTTCAGCAGGTGGAAGAAAAAGTATTTTTTGCAGAGTTTGAACATCTCTATCAAGAAAGCCAAA
AGATAGCATTGGCAAGGCAAACGGAATTGGATGTTGAAGTGACTGCAAGGAAGATTCAAACGCCCTACCAGACGGTGGAG
ATTCCTGATTCTGTCATTTTGCAAGATCCTAAAACTATTCGATTGGACCGAGCAGGTGGCAATTCTTCGCTAGCCAATGT
TCACTTTCAGACACAGAGAGGAGTGGTGACTTATCAGCTTTCACTTGGAAATGGGAAAATTAAAAAAAGCATCCGTTCCC
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