Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYD   Type   Machinery gene
Locus tag   SIR_RS18220 Genome accession   NC_022246
Coordinates   1759541..1759969 (-) Length   142 a.a.
NCBI ID   WP_021003257.1    Uniprot ID   -
Organism   Streptococcus intermedius B196     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1754541..1764969
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SIR_RS18195 (SIR_1661) - 1756258..1757457 (-) 1200 WP_021003254.1 acetate kinase -
  SIR_RS18200 (SIR_1662) comYH 1757504..1758457 (-) 954 WP_021003255.1 class I SAM-dependent methyltransferase Machinery gene
  SIR_RS18205 (SIR_1663) comGG 1758548..1758874 (-) 327 WP_021003256.1 competence type IV pilus minor pilin ComGG -
  SIR_RS18210 (SIR_1664) comGF/cglF 1758855..1759292 (-) 438 WP_003073990.1 competence type IV pilus minor pilin ComGF Machinery gene
  SIR_RS18215 (SIR_1665) comGE/cglE 1759276..1759569 (-) 294 WP_003073987.1 competence type IV pilus minor pilin ComGE Machinery gene
  SIR_RS18220 (SIR_1666) comYD 1759541..1759969 (-) 429 WP_021003257.1 competence type IV pilus minor pilin ComGD Machinery gene
  SIR_RS18225 (SIR_1667) comYC 1759929..1760246 (-) 318 WP_003075998.1 competence type IV pilus major pilin ComGC Machinery gene
  SIR_RS18230 (SIR_1668) comYB 1760243..1761265 (-) 1023 WP_021003258.1 competence type IV pilus assembly protein ComGB Machinery gene
  SIR_RS18235 (SIR_1669) comYA 1761207..1762148 (-) 942 WP_003073980.1 competence type IV pilus ATPase ComGA Machinery gene
  SIR_RS18240 (SIR_1670) - 1762217..1762582 (-) 366 WP_021003259.1 DUF1033 family protein -
  SIR_RS18245 (SIR_1671) glnA 1762804..1764150 (-) 1347 WP_021003260.1 type I glutamate--ammonia ligase -
  SIR_RS18250 (SIR_1672) - 1764189..1764548 (-) 360 WP_003073972.1 MerR family transcriptional regulator -

Sequence

Protein


Download         Length: 142 a.a.        Molecular weight: 16290.81 Da        Isoelectric Point: 10.3161

>NTDB_id=61914 SIR_RS18220 WP_021003257.1 1759541..1759969(-) (comYD) [Streptococcus intermedius B196]
MRNIQKKLVLLQIKGFTILESLLTLFVASFLLLAVSGAVRSSFEQVEEQIFFLEFEHFYRESQKLSNASQRQLDMNFSRE
RISNGYNSLSIPRSVHAPDDLTLRFDKAGGNSSLGKIVFQTKRQTITYQLYLGNGKFKKTIC

Nucleotide


Download         Length: 429 bp        

>NTDB_id=61914 SIR_RS18220 WP_021003257.1 1759541..1759969(-) (comYD) [Streptococcus intermedius B196]
ATGCGAAACATACAAAAGAAACTCGTTCTGTTGCAGATTAAGGGATTTACAATTTTGGAAAGTTTGCTGACTTTGTTTGT
AGCGAGTTTTTTATTACTTGCTGTGTCAGGGGCTGTCCGTTCTTCTTTTGAACAAGTGGAAGAGCAGATTTTCTTTCTTG
AGTTTGAGCATTTTTACCGAGAAAGTCAGAAGTTGAGTAATGCTAGTCAAAGGCAATTGGACATGAATTTTTCTCGTGAG
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

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

61.538

91.549

0.563
  comGD/cglD Streptococcus mitis NCTC 12261

55.814

90.845

0.507
  comGD/cglD Streptococcus mitis SK321

55.118

89.437

0.493
  comGD/cglD Streptococcus pneumoniae Rx1

55.118

89.437

0.493
  comGD/cglD Streptococcus pneumoniae D39

55.118

89.437

0.493
  comGD/cglD Streptococcus pneumoniae R6

55.118

89.437

0.493
  comGD/cglD Streptococcus pneumoniae TIGR4

54.331

89.437

0.486
  comYD Streptococcus mutans UA140

50.769

91.549

0.465
  comYD Streptococcus mutans UA159

50.769

91.549

0.465

Multiple sequence alignment