Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   A6J85_RS04930 Genome accession   NZ_CP020450
Coordinates   977895..978323 (+) Length   142 a.a.
NCBI ID   WP_045634161.1    Uniprot ID   -
Organism   Streptococcus gordonii strain FDAARGOS_257     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 972895..983323
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A6J85_RS04910 (A6J85_04855) - 975244..975603 (+) 360 WP_008810065.1 DUF1033 family protein -
  A6J85_RS04915 (A6J85_04860) comYA 975716..976654 (+) 939 WP_046164736.1 competence type IV pilus ATPase ComGA Machinery gene
  A6J85_RS04920 (A6J85_04865) comYB 976587..977621 (+) 1035 WP_105165110.1 competence type IV pilus assembly protein ComGB Machinery gene
  A6J85_RS04925 (A6J85_04870) comYC 977618..977935 (+) 318 WP_045634162.1 competence type IV pilus major pilin ComGC Machinery gene
  A6J85_RS04930 (A6J85_04875) comYD 977895..978323 (+) 429 WP_045634161.1 competence type IV pilus minor pilin ComGD Machinery gene
  A6J85_RS04935 (A6J85_04880) comGE/cglE 978295..978588 (+) 294 WP_045634160.1 competence type IV pilus minor pilin ComGE Machinery gene
  A6J85_RS04940 (A6J85_04885) comGF/cglF 978572..979009 (+) 438 WP_061596806.1 competence type IV pilus minor pilin ComGF Machinery gene
  A6J85_RS04945 (A6J85_04890) comGG 978990..979421 (+) 432 WP_223351938.1 competence type IV pilus minor pilin ComGG -
  A6J85_RS04950 (A6J85_04895) comYH 979452..980405 (+) 954 WP_048777263.1 class I SAM-dependent methyltransferase Machinery gene
  A6J85_RS04955 (A6J85_04900) - 980455..981645 (+) 1191 WP_048777262.1 acetate kinase -
  A6J85_RS04960 (A6J85_04905) - 981693..982358 (+) 666 WP_048777261.1 CPBP family intramembrane glutamic endopeptidase -

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 16070.68 Da        Isoelectric Point: 10.1975

>NTDB_id=223176 A6J85_RS04930 WP_045634161.1 977895..978323(+) (comYD) [Streptococcus gordonii strain FDAARGOS_257]
MVRTIVRLRQLPIKAFTVLESLLVLMISSFILLALSSSVQATFEQIQAKIFFLEFEHFYQESQKLSVSSQRKLVLEISNQ
EISNGYARLPIPKGIQAPESTQIYFDKAGGNSSLSKVQFQTKEGLVTYQLYIGNGKFKKTTN

Nucleotide


Download         Length: 429 bp        

>NTDB_id=223176 A6J85_RS04930 WP_045634161.1 977895..978323(+) (comYD) [Streptococcus gordonii strain FDAARGOS_257]
ATGGTAAGAACAATAGTGAGACTCAGGCAGTTGCCAATTAAGGCCTTTACAGTTTTGGAAAGCCTCTTGGTCCTGATGAT
TAGCAGTTTTATCTTGCTGGCTTTATCAAGCTCTGTTCAAGCTACTTTTGAGCAGATTCAGGCAAAGATCTTCTTTTTAG
AATTTGAGCATTTTTATCAGGAAAGTCAGAAGCTTAGCGTATCTTCTCAGAGAAAGCTGGTGCTAGAAATCTCAAACCAA
GAGATTTCAAACGGCTATGCTCGTCTTCCAATTCCTAAAGGAATCCAAGCACCTGAATCTACACAGATCTATTTTGATAA
GGCTGGAGGTAATTCTTCACTCAGTAAAGTTCAGTTTCAAACCAAGGAAGGACTGGTGACCTATCAACTCTATATTGGAA
ATGGCAAATTTAAGAAAACGACAAATTAA

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

99.296

100

0.993
  comGD/cglD Streptococcus pneumoniae TIGR4

59.055

89.437

0.528
  comGD/cglD Streptococcus mitis SK321

59.055

89.437

0.528
  comGD/cglD Streptococcus pneumoniae Rx1

59.055

89.437

0.528
  comGD/cglD Streptococcus pneumoniae D39

59.055

89.437

0.528
  comGD/cglD Streptococcus pneumoniae R6

59.055

89.437

0.528
  comGD/cglD Streptococcus mitis NCTC 12261

55.97

94.366

0.528
  comYD Streptococcus mutans UA140

49.612

90.845

0.451
  comYD Streptococcus mutans UA159

49.612

90.845

0.451
  comGD Lactococcus lactis subsp. cremoris KW2

37.589

99.296

0.373

Multiple sequence alignment