Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   RYQ61_RS02620 Genome accession   NZ_CP136799
Coordinates   517785..518213 (-) Length   142 a.a.
NCBI ID   WP_037582814.1    Uniprot ID   A0A428ENI2
Organism   Streptococcus intermedius strain XH2169     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 512785..523213
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RYQ61_RS02595 (RYQ61_02595) - 514502..515701 (-) 1200 WP_021003254.1 acetate kinase -
  RYQ61_RS02600 (RYQ61_02600) comYH 515748..516701 (-) 954 WP_102568323.1 class I SAM-dependent methyltransferase Machinery gene
  RYQ61_RS02605 (RYQ61_02605) comGG 516792..517118 (-) 327 WP_020999196.1 competence type IV pilus minor pilin ComGG -
  RYQ61_RS02610 (RYQ61_02610) comGF/cglF 517099..517536 (-) 438 WP_003073990.1 competence type IV pilus minor pilin ComGF Machinery gene
  RYQ61_RS02615 (RYQ61_02615) comGE/cglE 517520..517813 (-) 294 WP_048785663.1 competence type IV pilus minor pilin ComGE Machinery gene
  RYQ61_RS02620 (RYQ61_02620) comYD 517785..518213 (-) 429 WP_037582814.1 competence type IV pilus minor pilin ComGD Machinery gene
  RYQ61_RS02625 (RYQ61_02625) comYC 518173..518490 (-) 318 WP_003073983.1 competence type IV pilus major pilin ComGC Machinery gene
  RYQ61_RS02630 (RYQ61_02630) comYB 518487..519509 (-) 1023 WP_172964131.1 competence type IV pilus assembly protein ComGB Machinery gene
  RYQ61_RS02635 (RYQ61_02635) comYA 519451..520392 (-) 942 WP_102568325.1 competence type IV pilus ATPase ComGA Machinery gene
  RYQ61_RS02640 (RYQ61_02640) - 520461..520826 (-) 366 WP_048785667.1 DUF1033 family protein -
  RYQ61_RS02645 (RYQ61_02645) glnA 521048..522394 (-) 1347 WP_021003260.1 type I glutamate--ammonia ligase -
  RYQ61_RS02650 (RYQ61_02650) - 522433..522792 (-) 360 WP_102568326.1 MerR family transcriptional regulator -

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 16304.83 Da        Isoelectric Point: 10.3161

>NTDB_id=892707 RYQ61_RS02620 WP_037582814.1 517785..518213(-) (comYD) [Streptococcus intermedius strain XH2169]
MRNIQKKLVLLQIKGFTILESLLTLFVASFLLLAVSGAVRSSFEQVEEQIFFLEFEHFYRESQKLSNATQRQLDMNFSRE
RISNGYNSLSIPRSVHAPDDLTLRFDKAGGNSSLGKIVFQTKRQTITYQLYLGNGKFKKTIC

Nucleotide


Download         Length: 429 bp        

>NTDB_id=892707 RYQ61_RS02620 WP_037582814.1 517785..518213(-) (comYD) [Streptococcus intermedius strain XH2169]
ATGCGAAACATACAAAAGAAACTCGTTCTGTTGCAGATTAAGGGATTTACAATTTTGGAAAGTTTGCTGACTTTGTTTGT
AGCGAGTTTTTTATTACTTGCTGTTTCAGGGGCTGTCCGTTCCTCTTTTGAACAAGTGGAAGAGCAGATTTTCTTTCTTG
AGTTTGAGCATTTTTACCGAGAAAGCCAGAAGTTGAGTAATGCTACTCAAAGGCAATTGGACATGAATTTTTCTCGTGAG
CGAATTTCTAATGGGTACAATTCTTTATCAATTCCTCGCTCGGTTCACGCTCCAGATGATTTAACACTTCGTTTTGATAA
GGCAGGTGGTAATTCCTCGCTTGGTAAGATTGTATTTCAGACGAAAAGACAGACAATTACGTATCAATTATATCTAGGAA
ATGGAAAATTTAAGAAAACAATATGTTAG

Domains


No domain identified.



Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A428ENI2

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

60.769

91.549

0.556
  comGD/cglD Streptococcus mitis NCTC 12261

55.039

90.845

0.5
  comGD/cglD Streptococcus mitis SK321

54.331

89.437

0.486
  comGD/cglD Streptococcus pneumoniae Rx1

54.331

89.437

0.486
  comGD/cglD Streptococcus pneumoniae D39

54.331

89.437

0.486
  comGD/cglD Streptococcus pneumoniae R6

54.331

89.437

0.486
  comGD/cglD Streptococcus pneumoniae TIGR4

53.543

89.437

0.479
  comYD Streptococcus mutans UA140

50.769

91.549

0.465
  comYD Streptococcus mutans UA159

50.769

91.549

0.465