Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   OPT60_RS00790 Genome accession   NZ_CP125359
Coordinates   127703..128734 (+) Length   343 a.a.
NCBI ID   WP_084916952.1    Uniprot ID   -
Organism   Streptococcus dysgalactiae subsp. equisimilis strain UT_10236     
Function   dsDNA binding to the cell surface; assembly of the pseudopilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
ICE 94126..127767 127703..128734 flank -64


Gene organization within MGE regions


Location: 94126..128734
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OPT60_RS00650 (OPT60_00650) - 94126..95259 (-) 1134 WP_001007677.1 site-specific integrase -
  OPT60_RS00655 (OPT60_00655) - 95264..95458 (-) 195 WP_000562208.1 DUF3173 family protein -
  OPT60_RS00660 (OPT60_00660) - 95527..96873 (-) 1347 WP_084916941.1 Rep family protein -
  OPT60_RS00665 (OPT60_00665) - 97224..97583 (-) 360 WP_025194534.1 hypothetical protein -
  OPT60_RS00670 (OPT60_00670) - 97598..97936 (-) 339 WP_000092752.1 hypothetical protein -
  OPT60_RS00675 (OPT60_00675) - 98186..98641 (+) 456 WP_000021848.1 helix-turn-helix domain-containing protein -
  OPT60_RS00680 (OPT60_00680) - 98939..100068 (+) 1130 Protein_85 IS3 family transposase -
  OPT60_RS00685 (OPT60_00685) - 100156..100488 (-) 333 WP_000181338.1 hypothetical protein -
  OPT60_RS00690 (OPT60_00690) - 100499..100906 (-) 408 WP_000351058.1 helix-turn-helix transcriptional regulator -
  OPT60_RS00695 (OPT60_00695) - 101162..101476 (+) 315 Protein_88 transposase -
  OPT60_RS00700 (OPT60_00700) - 101896..102432 (+) 537 WP_041788713.1 NUDIX domain-containing protein -
  OPT60_RS00705 (OPT60_00705) - 102567..103466 (+) 900 WP_003058398.1 prenyltransferase -
  OPT60_RS00710 (OPT60_00710) - 103481..104689 (+) 1209 WP_065358554.1 NAD(P)/FAD-dependent oxidoreductase -
  OPT60_RS00715 (OPT60_00715) - 104799..106226 (+) 1428 WP_084916943.1 cytochrome ubiquinol oxidase subunit I -
  OPT60_RS00720 (OPT60_00720) cydB 106227..107246 (+) 1020 WP_084916945.1 cytochrome d ubiquinol oxidase subunit II -
  OPT60_RS00725 (OPT60_00725) cydD 107246..108961 (+) 1716 WP_003055281.1 thiol reductant ABC exporter subunit CydD -
  OPT60_RS00730 (OPT60_00730) cydC 108958..110706 (+) 1749 WP_065355135.1 thiol reductant ABC exporter subunit CydC -
  OPT60_RS00735 (OPT60_00735) - 110771..111751 (-) 981 WP_084916947.1 polyprenyl synthetase family protein -
  OPT60_RS00740 (OPT60_00740) ispE 112007..112858 (+) 852 WP_003061506.1 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase -
  OPT60_RS00745 (OPT60_00745) - 112927..113370 (+) 444 WP_012766439.1 zinc-dependent MarR family transcriptional regulator -
  OPT60_RS00750 (OPT60_00750) - 113374..114093 (+) 720 WP_022554112.1 metal ABC transporter ATP-binding protein -
  OPT60_RS00755 (OPT60_00755) - 114086..114898 (+) 813 WP_003055293.1 metal ABC transporter permease -
  OPT60_RS00760 (OPT60_00760) tyrS 114947..116203 (-) 1257 WP_084916949.1 tyrosine--tRNA ligase -
  OPT60_RS00765 (OPT60_00765) pbp1b 116310..118610 (+) 2301 WP_003059682.1 penicillin-binding protein PBP1B -
  OPT60_RS00770 (OPT60_00770) rpoB 118874..122440 (+) 3567 WP_049519675.1 DNA-directed RNA polymerase subunit beta -
  OPT60_RS00775 (OPT60_00775) rpoC 122536..126177 (+) 3642 WP_037589802.1 DNA-directed RNA polymerase subunit beta' -
  OPT60_RS00780 (OPT60_00780) - 126380..126745 (+) 366 WP_003055257.1 DUF1033 family protein -
  OPT60_RS00785 (OPT60_00785) comGA/cglA 126826..127767 (+) 942 WP_014611930.1 competence type IV pilus ATPase ComGA Machinery gene
  OPT60_RS00790 (OPT60_00790) comYB 127703..128734 (+) 1032 WP_084916952.1 competence type IV pilus assembly protein ComGB Machinery gene

Sequence

Protein


Download         Length: 343 a.a.        Molecular weight: 38965.39 Da        Isoelectric Point: 9.2055

>NTDB_id=831192 OPT60_RS00790 WP_084916952.1 127703..128734(+) (comYB) [Streptococcus dysgalactiae subsp. equisimilis strain UT_10236]
MTFLQRDISVRSKQGLKKLSSKEQYKLIQLLANLLLTGFNLAEIIAFLTKSHLIPEPYVLRMEEALLKGRGLADMLAGIG
FSDAILTQISLADGHGNIETTLVNIQGYLNQMAKLKRKTIEVVTYPIILLVFLFVMILGLRHYVMPQLEAQNQLTIFLTH
FPAIFFGIILFIGVLLGGIWLHWRSQSRLKLFIHFSAYPVLGKLLQQYLTAYYAREWGTLIGQGLELPVILDIMAMEKSL
FMQELAEDIRVSLLAGQAFHDKVATYPFFKKELSLMITYGEIKSKLGSELEIYAQESWTQFFSQLHQATQFIQPIIFLVI
ALTIVMIYAAILLPIYQNMGGVL

Nucleotide


Download         Length: 1032 bp        

>NTDB_id=831192 OPT60_RS00790 WP_084916952.1 127703..128734(+) (comYB) [Streptococcus dysgalactiae subsp. equisimilis strain UT_10236]
ATGACCTTCTTGCAGCGGGACATCTCAGTCCGGAGCAAGCAAGGTTTGAAAAAATTATCCAGTAAGGAACAATACAAACT
AATTCAGCTATTAGCTAACCTTTTGTTAACAGGATTTAACTTGGCTGAGATAATAGCTTTCTTAACAAAAAGTCATTTGA
TTCCCGAGCCCTATGTTCTCCGCATGGAAGAAGCACTCTTAAAAGGTCGAGGGCTGGCAGATATGTTAGCTGGGATAGGT
TTTTCGGATGCTATTTTAACTCAAATTAGTTTAGCAGATGGTCACGGAAACATTGAGACGACGCTTGTTAATATTCAGGG
CTATCTCAACCAAATGGCTAAACTTAAACGAAAAACCATTGAAGTCGTCACCTATCCGATTATTCTCCTGGTATTTCTTT
TTGTGATGATATTAGGCTTAAGGCATTATGTTATGCCTCAATTAGAAGCTCAAAATCAGCTTACTATTTTTCTGACTCAT
TTTCCAGCTATTTTCTTTGGTATTATCCTTTTTATAGGTGTGCTGTTAGGGGGAATTTGGCTGCATTGGCGATCGCAAAG
TCGCCTCAAGCTTTTTATTCACTTCAGTGCTTATCCTGTTTTAGGGAAACTCTTACAACAGTATCTGACGGCTTATTATG
CTAGAGAATGGGGAACATTGATTGGACAGGGACTTGAATTACCAGTCATTCTGGATATTATGGCCATGGAGAAATCTTTA
TTCATGCAAGAATTGGCTGAAGATATTCGAGTTAGTTTATTGGCAGGACAAGCTTTTCATGATAAGGTAGCTACCTATCC
TTTCTTTAAAAAAGAGTTAAGTTTGATGATTACTTATGGAGAGATTAAATCCAAGTTAGGAAGTGAACTAGAGATTTATG
CTCAAGAGAGTTGGACTCAGTTTTTCAGCCAACTTCATCAAGCAACTCAGTTTATTCAACCGATTATCTTTTTAGTGATT
GCTCTGACGATTGTCATGATTTATGCAGCAATTTTATTACCAATTTATCAAAATATGGGAGGCGTTTTATAA

Domains

Predicted by InterproScan.

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

(28-146)

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

(214-334)


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 mutans UA140

53.392

98.834

0.528
  comYB Streptococcus mutans UA159

53.392

98.834

0.528
  comYB Streptococcus gordonii str. Challis substr. CH1

48.673

98.834

0.481
  comGB/cglB Streptococcus mitis NCTC 12261

45.97

97.668

0.449
  comGB/cglB Streptococcus mitis SK321

45.345

97.085

0.44
  comGB/cglB Streptococcus pneumoniae Rx1

43.844

97.085

0.426
  comGB/cglB Streptococcus pneumoniae D39

43.844

97.085

0.426
  comGB/cglB Streptococcus pneumoniae R6

43.844

97.085

0.426
  comGB/cglB Streptococcus pneumoniae TIGR4

43.844

97.085

0.426
  comGB Lactococcus lactis subsp. cremoris KW2

42.478

98.834

0.42