Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   RN86_RS04165 Genome accession   NZ_CP012648
Coordinates   844400..844828 (+) Length   142 a.a.
NCBI ID   WP_069097080.1    Uniprot ID   -
Organism   Streptococcus gordonii strain KCOM 1506 (= ChDC B679)     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 839400..849828
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RN86_RS04145 (RN86_04140) - 841751..842119 (+) 369 WP_046164737.1 DUF1033 family protein -
  RN86_RS04150 (RN86_04145) comYA 842221..843159 (+) 939 WP_046164736.1 competence type IV pilus ATPase ComGA Machinery gene
  RN86_RS04155 (RN86_04150) comYB 843092..844126 (+) 1035 WP_046164735.1 competence type IV pilus assembly protein ComGB Machinery gene
  RN86_RS04160 (RN86_04155) comYC 844123..844440 (+) 318 WP_012130940.1 competence type IV pilus major pilin ComGC Machinery gene
  RN86_RS04165 (RN86_04160) comYD 844400..844828 (+) 429 WP_069097080.1 competence type IV pilus minor pilin ComGD Machinery gene
  RN86_RS04170 (RN86_04165) comGE/cglE 844800..845093 (+) 294 WP_046164733.1 competence type IV pilus minor pilin ComGE Machinery gene
  RN86_RS04175 (RN86_04170) comGF/cglF 845077..845514 (+) 438 WP_053794327.1 competence type IV pilus minor pilin ComGF Machinery gene
  RN86_RS04180 (RN86_04175) comGG 845495..845926 (+) 432 WP_253276489.1 competence type IV pilus minor pilin ComGG -
  RN86_RS04185 (RN86_04180) comYH 845957..846910 (+) 954 WP_053794328.1 class I SAM-dependent methyltransferase Machinery gene
  RN86_RS04190 (RN86_04185) - 846960..848150 (+) 1191 WP_045634156.1 acetate kinase -
  RN86_RS04195 (RN86_04190) - 848197..848862 (+) 666 WP_053794329.1 type II CAAX endopeptidase family protein -

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 16100.70 Da        Isoelectric Point: 10.1975

>NTDB_id=156073 RN86_RS04165 WP_069097080.1 844400..844828(+) (comYD) [Streptococcus gordonii strain KCOM 1506 (= ChDC B679)]
MVRTIVRLRQLPIKAFTVLESLLVLMISSFILLALSSSVQATFEQIQAKIFFLEFEHFYQESQKLSVSSQRKLVLEISNQ
EISNGYARLPIPKGIQTPESTQIYFDKAGGNSSLSKVQFQTKEGLVTYQLYIGNGKFKKTTN

Nucleotide


Download         Length: 429 bp        

>NTDB_id=156073 RN86_RS04165 WP_069097080.1 844400..844828(+) (comYD) [Streptococcus gordonii strain KCOM 1506 (= ChDC B679)]
ATGGTAAGAACAATAGTGAGACTCAGGCAGTTGCCAATTAAGGCCTTTACAGTTTTGGAAAGCCTCTTGGTCCTGATGAT
TAGCAGTTTTATCTTGCTGGCTTTATCAAGCTCTGTTCAAGCTACTTTTGAGCAGATTCAGGCAAAGATCTTCTTTTTAG
AATTTGAGCATTTTTATCAGGAAAGTCAGAAGCTTAGCGTATCTTCTCAGAGAAAGCTGGTGCTAGAAATCTCAAACCAA
GAGATTTCAAACGGCTATGCTCGTCTTCCAATTCCTAAAGGAATCCAAACACCTGAATCTACACAGATCTATTTTGATAA
GGCTGGAGGTAATTCTTCACTCAGTAAAGTTCAGTTTCAAACCAAGGAAGGACTGGTGACCTATCAACTCTATATTGGAA
ATGGTAAATTTAAGAAAACGACAAATTAA

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

98.592

100

0.986
  comGD/cglD Streptococcus pneumoniae TIGR4

58.268

89.437

0.521
  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 mitis NCTC 12261

55.224

94.366

0.521
  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