Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   LPB404_RS01905 Genome accession   NZ_CP079821
Coordinates   373467..374489 (+) Length   340 a.a.
NCBI ID   WP_257573088.1    Uniprot ID   -
Organism   Streptococcus rubneri strain LPB0404     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 368467..379489
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPB404_RS01895 (LPB404_01895) - 372102..372479 (+) 378 WP_219074901.1 DUF1033 family protein -
  LPB404_RS01900 (LPB404_01900) comYA 372584..373543 (+) 960 WP_219074902.1 competence type IV pilus ATPase ComGA Machinery gene
  LPB404_RS01905 (LPB404_01905) comYB 373467..374489 (+) 1023 WP_257573088.1 competence type IV pilus assembly protein ComGB Machinery gene
  LPB404_RS01910 (LPB404_01910) comGC/cglC 374486..374803 (+) 318 WP_219074903.1 competence type IV pilus major pilin ComGC Machinery gene
  LPB404_RS01915 (LPB404_01915) comGD/cglD 374793..375197 (+) 405 WP_219075204.1 competence type IV pilus minor pilin ComGD Machinery gene
  LPB404_RS01920 (LPB404_01920) comGE 375163..375456 (+) 294 WP_219074904.1 competence type IV pilus minor pilin ComGE -
  LPB404_RS01925 (LPB404_01925) comGF/cglF 375440..375892 (+) 453 WP_219075203.1 competence type IV pilus minor pilin ComGF Machinery gene
  LPB404_RS01930 (LPB404_01930) comGG 375921..376304 (+) 384 WP_374030902.1 competence type IV pilus minor pilin ComGG -
  LPB404_RS01935 (LPB404_01935) comYH 376336..377289 (+) 954 WP_120701351.1 class I SAM-dependent methyltransferase Machinery gene
  LPB404_RS01940 (LPB404_01940) - 377338..378534 (+) 1197 WP_219074906.1 acetate kinase -
  LPB404_RS01945 (LPB404_01945) - 378687..379361 (+) 675 WP_244917016.1 CPBP family intramembrane glutamic endopeptidase -

Sequence

Protein


Download         Length: 340 a.a.        Molecular weight: 38771.77 Da        Isoelectric Point: 9.7453

>NTDB_id=589729 LPB404_RS01905 WP_257573088.1 373467..374489(+) (comYB) [Streptococcus rubneri strain LPB0404]
MKRDILSWIRRKPKKLSIAKQEHVIELFHNLYSSGFHLSEVIDFLRRSHLVEADFVERMQVGLANGKPLSAILSDLGFSD
QVTTQLALAEQHGNVTLSLEKIRSYLENLTQVRKKLVEVATYPVLLLGFLMAIMLGLKNYLLPQLESQNGATRLISVFPQ
YVLVGSVLLAVGVLILLFLGRRTKRLTLVSFLATLPFLRPFLQDYLTAFYAREWGSMIAQGLELNQIFPMMQGQRSRLFR
EIGQDLEVALARGTSFSDHIQTYPFFKRELALMIEYGEAKSKLGSELEIYADKTWAGFFHRLNKAMNVVQPLVFVFVALM
IVLLYAAMLLPIYENLEVPL

Nucleotide


Download         Length: 1023 bp        

>NTDB_id=589729 LPB404_RS01905 WP_257573088.1 373467..374489(+) (comYB) [Streptococcus rubneri strain LPB0404]
ATGAAGCGGGACATATTGAGTTGGATCAGGCGCAAGCCGAAAAAATTATCGATTGCCAAGCAAGAGCATGTCATTGAGCT
CTTTCACAATCTCTACAGTAGTGGCTTTCATCTATCAGAGGTCATCGACTTTTTACGTCGGAGCCATTTGGTAGAGGCAG
ATTTTGTTGAAAGAATGCAAGTCGGACTTGCCAACGGCAAGCCCTTGTCAGCCATTCTCTCTGATCTAGGCTTCTCCGAT
CAGGTAACGACTCAATTAGCACTGGCAGAGCAGCATGGAAATGTCACCTTAAGTTTAGAAAAAATCCGCAGCTACCTGGA
AAATCTGACCCAGGTTCGAAAGAAACTAGTTGAGGTAGCGACCTATCCAGTGCTATTGTTGGGATTTTTGATGGCCATTA
TGCTGGGTCTGAAAAACTATCTCTTGCCTCAGTTGGAGAGTCAAAATGGTGCGACACGATTGATCAGTGTCTTTCCCCAG
TATGTTTTGGTAGGAAGTGTGTTGCTAGCGGTTGGAGTTTTGATTCTCCTCTTCCTTGGTCGTCGAACCAAGCGTCTGAC
CCTTGTTTCATTTTTAGCTACCCTTCCTTTTCTTCGCCCCTTCTTACAGGATTATCTGACGGCTTTTTATGCTCGAGAAT
GGGGGAGTATGATTGCCCAAGGGTTGGAGCTGAATCAAATCTTTCCAATGATGCAGGGGCAACGTTCTCGTCTGTTTCGA
GAGATTGGACAGGATTTGGAAGTAGCCTTGGCTCGGGGGACTTCGTTTTCTGATCATATTCAGACCTATCCTTTCTTTAA
GCGAGAGTTGGCCCTCATGATTGAATATGGAGAGGCCAAGTCCAAGCTCGGTAGTGAGCTGGAGATCTATGCAGACAAGA
CCTGGGCAGGCTTTTTCCATCGGTTGAACAAGGCCATGAATGTCGTCCAACCACTGGTCTTTGTCTTTGTCGCCCTAATG
ATTGTTTTGCTCTATGCAGCCATGTTGCTGCCTATTTATGAAAATTTGGAGGTTCCTTTATGA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(211-331)

Type II secretion system (T2SS), protein F (T2SSF)

(26-143)


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
  comYB Streptococcus gordonii str. Challis substr. CH1

61.988

100

0.624
  comGB/cglB Streptococcus mitis NCTC 12261

60

98.529

0.591
  comGB/cglB Streptococcus mitis SK321

59.05

99.118

0.585
  comGB/cglB Streptococcus pneumoniae Rx1

58.457

99.118

0.579
  comGB/cglB Streptococcus pneumoniae D39

58.457

99.118

0.579
  comGB/cglB Streptococcus pneumoniae R6

58.457

99.118

0.579
  comGB/cglB Streptococcus pneumoniae TIGR4

58.457

99.118

0.579
  comYB Streptococcus mutans UA159

59.937

93.235

0.559
  comYB Streptococcus mutans UA140

59.937

93.235

0.559
  comGB Lactococcus lactis subsp. cremoris KW2

49.271

100

0.497