Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   STCNRZ385_RS08985 Genome accession   NZ_CP065495
Coordinates   1729349..1730449 (-) Length   366 a.a.
NCBI ID   WP_116920398.1    Uniprot ID   -
Organism   Streptococcus thermophilus strain CNRZ385     
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 1730999..1791452 1729349..1730449 flank 550


Gene organization within MGE regions


Location: 1729349..1791452
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  STCNRZ385_RS08985 (STCNRZ385_08965) comYB 1729349..1730449 (-) 1101 WP_116920398.1 competence type IV pilus assembly protein ComGB Machinery gene
  STCNRZ385_RS08990 (STCNRZ385_08970) comGA/cglA/cilD 1730331..1731272 (-) 942 WP_180483385.1 competence type IV pilus ATPase ComGA Machinery gene
  STCNRZ385_RS08995 (STCNRZ385_08975) - 1731353..1731715 (-) 363 WP_014608746.1 DUF1033 family protein -
  STCNRZ385_RS09000 (STCNRZ385_08980) rpoC 1731874..1735512 (-) 3639 WP_011226631.1 DNA-directed RNA polymerase subunit beta' -
  STCNRZ385_RS09005 (STCNRZ385_08985) rpoB 1735613..1739194 (-) 3582 WP_023909983.1 DNA-directed RNA polymerase subunit beta -
  STCNRZ385_RS09010 (STCNRZ385_08990) pbp1b 1739555..1741978 (-) 2424 WP_180483387.1 penicillin-binding protein PBP1B -
  STCNRZ385_RS09015 (STCNRZ385_08995) tyrS 1742079..1743335 (+) 1257 WP_011681693.1 tyrosine--tRNA ligase -
  STCNRZ385_RS09020 (STCNRZ385_09000) ilvC 1743461..1744483 (-) 1023 WP_002952054.1 ketol-acid reductoisomerase -
  STCNRZ385_RS09025 (STCNRZ385_09005) ilvN 1744559..1745035 (-) 477 WP_011226635.1 acetolactate synthase small subunit -
  STCNRZ385_RS09030 (STCNRZ385_09010) - 1745028..1746728 (-) 1701 WP_014622011.1 acetolactate synthase large subunit -
  STCNRZ385_RS09035 (STCNRZ385_09015) ilvD 1746863..1748583 (-) 1721 Protein_1721 dihydroxy-acid dehydratase -
  STCNRZ385_RS09040 (STCNRZ385_09020) - 1748753..1750420 (-) 1668 WP_014608752.1 DAK2 domain-containing protein -
  STCNRZ385_RS09045 (STCNRZ385_09025) - 1750420..1750785 (-) 366 WP_011681698.1 Asp23/Gls24 family envelope stress response protein -
  STCNRZ385_RS09050 (STCNRZ385_09030) - 1750895..1752184 (-) 1290 WP_011681699.1 MATE family efflux transporter -
  STCNRZ385_RS09055 (STCNRZ385_09035) thrC 1752242..1753726 (-) 1485 WP_014608753.1 threonine synthase -
  STCNRZ385_RS09060 adhE 1754314..1756906 (-) 2593 Protein_1726 bifunctional acetaldehyde-CoA/alcohol dehydrogenase -
  STCNRZ385_RS09065 (STCNRZ385_09070) - 1757045..1758940 (-) 1896 WP_014608759.1 M13 family metallopeptidase -
  STCNRZ385_RS09070 - 1759021..1760173 (-) 1153 Protein_1728 alpha-amylase family glycosyl hydrolase -
  STCNRZ385_RS10090 - 1760240..1760556 (-) 317 Protein_1729 PTS glucose transporter subunit IIA -
  STCNRZ385_RS10095 - 1760611..1760976 (-) 366 WP_014608761.1 PTS trehalose transporter subunit IIBC -
  STCNRZ385_RS09080 (STCNRZ385_09100) treR 1761322..1762032 (+) 711 Protein_1731 trehalose operon repressor -
  STCNRZ385_RS09085 (STCNRZ385_09105) - 1762088..1762648 (-) 561 WP_002948266.1 TIGR01440 family protein -
  STCNRZ385_RS09090 (STCNRZ385_09110) - 1762661..1762999 (-) 339 WP_041829338.1 hypothetical protein -
  STCNRZ385_RS09095 (STCNRZ385_09115) - 1763032..1763388 (-) 357 WP_164135671.1 hypothetical protein -
  STCNRZ385_RS09100 - 1763652..1763939 (+) 288 WP_224102980.1 helix-turn-helix domain-containing protein -
  STCNRZ385_RS09105 (STCNRZ385_09120) - 1763956..1764642 (+) 687 WP_232087022.1 IS30 family transposase -
  STCNRZ385_RS09110 (STCNRZ385_09125) - 1765060..1765842 (-) 783 WP_180483390.1 toll/interleukin-1 receptor domain-containing protein -
  STCNRZ385_RS09115 (STCNRZ385_09130) - 1766002..1766769 (+) 768 WP_197926869.1 DUF262 domain-containing protein -
  STCNRZ385_RS09120 (STCNRZ385_09135) - 1766726..1767022 (+) 297 WP_197926870.1 hypothetical protein -
  STCNRZ385_RS09125 (STCNRZ385_09140) - 1767026..1767490 (+) 465 WP_197926871.1 DUF1524 domain-containing protein -
  STCNRZ385_RS09130 (STCNRZ385_09145) - 1767474..1767839 (+) 366 WP_197926872.1 DUF1524 domain-containing protein -
  STCNRZ385_RS09135 (STCNRZ385_09150) - 1768466..1768951 (+) 486 WP_232087023.1 hypothetical protein -
  STCNRZ385_RS09140 (STCNRZ385_09155) - 1768968..1769270 (+) 303 WP_167401585.1 hypothetical protein -
  STCNRZ385_RS10100 (STCNRZ385_09160) - 1769431..1769571 (+) 141 WP_180483615.1 helix-turn-helix transcriptional regulator -
  STCNRZ385_RS09145 (STCNRZ385_09165) - 1769564..1770661 (+) 1098 WP_179959070.1 DNA cytosine methyltransferase -
  STCNRZ385_RS09150 (STCNRZ385_09170) - 1770648..1771874 (+) 1227 WP_232087024.1 DNA cytosine methyltransferase -
  STCNRZ385_RS09155 (STCNRZ385_09175) - 1771899..1772942 (-) 1044 WP_180483392.1 restriction endonuclease PLD domain-containing protein -
  STCNRZ385_RS09160 (STCNRZ385_09180) - 1773135..1774040 (-) 906 WP_180483618.1 restriction endonuclease PLD domain-containing protein -
  STCNRZ385_RS09165 (STCNRZ385_09185) - 1774144..1774931 (-) 788 Protein_1749 ISL3 family transposase -
  STCNRZ385_RS09170 (STCNRZ385_09190) - 1775059..1775316 (-) 258 Protein_1750 hypothetical protein -
  STCNRZ385_RS09175 (STCNRZ385_09195) - 1775466..1776152 (-) 687 WP_180483395.1 XRE family transcriptional regulator -
  STCNRZ385_RS09180 (STCNRZ385_09200) - 1776161..1777021 (-) 861 WP_180483397.1 ImmA/IrrE family metallo-endopeptidase -
  STCNRZ385_RS09185 (STCNRZ385_09205) - 1777514..1777702 (-) 189 WP_180483399.1 helix-turn-helix transcriptional regulator -
  STCNRZ385_RS09190 (STCNRZ385_09210) - 1777708..1778049 (-) 342 WP_180483401.1 helix-turn-helix domain-containing protein -
  STCNRZ385_RS09195 (STCNRZ385_09215) - 1778912..1779208 (+) 297 WP_073945520.1 cytoplasmic protein -
  STCNRZ385_RS09200 (STCNRZ385_09220) - 1779230..1779691 (+) 462 WP_084831216.1 conjugal transfer protein -
  STCNRZ385_RS09205 (STCNRZ385_09225) - 1779705..1781393 (+) 1689 WP_180483403.1 FtsK/SpoIIIE domain-containing protein -
  STCNRZ385_RS09210 (STCNRZ385_09230) - 1781601..1782833 (+) 1233 WP_180483405.1 replication initiation factor domain-containing protein -
  STCNRZ385_RS09215 (STCNRZ385_09235) - 1782848..1783078 (+) 231 WP_021144867.1 hypothetical protein -
  STCNRZ385_RS09220 (STCNRZ385_09240) - 1783082..1783639 (+) 558 WP_045769331.1 hypothetical protein -
  STCNRZ385_RS09225 (STCNRZ385_09245) - 1783651..1784646 (+) 996 WP_180483407.1 conjugal transfer protein -
  STCNRZ385_RS09230 (STCNRZ385_09250) - 1784656..1784880 (+) 225 WP_084831221.1 hypothetical protein -
  STCNRZ385_RS09235 (STCNRZ385_09255) - 1784883..1785293 (+) 411 WP_180483409.1 conjugal transfer protein -
  STCNRZ385_RS09240 (STCNRZ385_09260) - 1785307..1787811 (+) 2505 WP_180483411.1 ATP-binding protein -
  STCNRZ385_RS09245 (STCNRZ385_09265) - 1787823..1789703 (+) 1881 WP_180483413.1 conjugal transfer protein -
  STCNRZ385_RS09250 (STCNRZ385_09270) - 1789705..1789929 (+) 225 WP_155222550.1 hypothetical protein -
  STCNRZ385_RS09255 (STCNRZ385_09275) - 1789955..1791067 (+) 1113 WP_180483415.1 CHAP domain-containing protein -
  STCNRZ385_RS09260 (STCNRZ385_09280) - 1791081..1791329 (+) 249 WP_037611155.1 hypothetical protein -

Sequence

Protein


Download         Length: 366 a.a.        Molecular weight: 41797.91 Da        Isoelectric Point: 10.1084

>NTDB_id=511047 STCNRZ385_RS08985 WP_116920398.1 1729349..1730449(-) (comYB) [Streptococcus thermophilus strain CNRZ385]
MPEKISKTIRRPTGISSWKVWLNKDVSLRGISKGKKLKISQQVKVIQLFKQLLKAGFTLTEIVAFLERSHLLKEASLSLM
KESLIRGDRLDQMLALVGFSDNIVTQISLADKHGNLLGSLTKIETYMLRMTKVRKKLMEVATYPILLLGFLILIMLGLKN
YLLPQLLEGDGKNNWAVQLVQIFPQLFFVSLCGLLVLGLILYLWVKRQSALVFYRRMAKIPFIGQTVRLYTTAYYAREWG
NLLGQGVDLLDLVALMQEQKSKLFRELGADLEEALMLGQSFPERIASHPFFTKELSLIIAYGEANARLGYELEVYAEEVW
QNFFNRLNKATTFVQPLIFVIVAVVIVMIYVAMLLPMYQNMEGMMS

Nucleotide


Download         Length: 1101 bp        

>NTDB_id=511047 STCNRZ385_RS08985 WP_116920398.1 1729349..1730449(-) (comYB) [Streptococcus thermophilus strain CNRZ385]
TTGCCAGAGAAAATTTCCAAAACCATTCGTCGACCAACTGGAATCAGCAGTTGGAAGGTTTGGTTAAACAAGGATGTCTC
ACTGAGAGGGATATCCAAGGGGAAAAAATTAAAGATTAGTCAGCAAGTTAAGGTTATCCAGCTCTTCAAACAACTTTTAA
AGGCCGGTTTTACCTTAACTGAAATCGTAGCCTTTTTGGAGCGAAGTCACTTGCTGAAAGAAGCATCCTTGTCTCTTATG
AAAGAGAGTTTAATACGCGGTGATAGGTTGGATCAGATGTTAGCGTTAGTGGGGTTTTCGGACAATATTGTTACTCAGAT
TTCTCTTGCTGACAAGCACGGTAATCTTCTAGGGAGTCTAACAAAGATTGAAACCTATATGCTTCGTATGACAAAGGTTC
GCAAGAAACTCATGGAGGTGGCGACTTATCCCATACTACTTCTGGGTTTTCTGATTCTGATTATGCTAGGACTTAAAAAT
TATCTTCTACCCCAACTCTTAGAGGGTGATGGTAAGAATAATTGGGCTGTACAGTTGGTTCAAATTTTTCCCCAGCTTTT
TTTTGTGAGTTTGTGTGGACTCCTTGTGTTGGGTTTAATTCTCTATCTATGGGTGAAACGACAGTCAGCCCTTGTTTTTT
ATAGGCGAATGGCCAAAATCCCTTTTATTGGTCAGACAGTAAGGCTTTACACGACCGCCTATTATGCTAGGGAATGGGGA
AATTTATTAGGTCAAGGCGTTGATTTGCTAGATTTGGTGGCTCTTATGCAAGAGCAAAAGTCTAAACTCTTCCGTGAGCT
GGGAGCCGATTTGGAAGAAGCCCTGATGCTGGGACAGAGTTTTCCTGAACGTATTGCCAGTCATCCGTTTTTTACTAAGG
AGCTCTCACTAATTATTGCTTATGGGGAGGCCAATGCGAGGTTGGGCTATGAGTTGGAAGTTTATGCCGAGGAGGTTTGG
CAAAACTTCTTTAACCGTCTTAATAAGGCAACAACCTTTGTGCAACCCCTCATTTTTGTTATTGTTGCAGTTGTGATTGT
AATGATCTATGTAGCCATGCTATTACCAATGTATCAAAATATGGAAGGAATGATGTCATGA

Domains

Predicted by InterproScan.

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

(236-356)

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

(51-164)


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

54.678

93.443

0.511
  comYB Streptococcus mutans UA159

54.678

93.443

0.511
  comYB Streptococcus gordonii str. Challis substr. CH1

51.17

93.443

0.478
  comGB/cglB Streptococcus mitis NCTC 12261

50.453

90.437

0.456
  comGB/cglB Streptococcus mitis SK321

49.697

90.164

0.448
  comGB/cglB Streptococcus pneumoniae Rx1

49.695

89.617

0.445
  comGB/cglB Streptococcus pneumoniae D39

49.695

89.617

0.445
  comGB/cglB Streptococcus pneumoniae R6

49.695

89.617

0.445
  comGB/cglB Streptococcus pneumoniae TIGR4

49.695

89.617

0.445
  comGB Lactococcus lactis subsp. cremoris KW2

45.758

90.164

0.413