Detailed information    

insolico Bioinformatically predicted

Overview

Name   comYB   Type   Machinery gene
Locus tag   SanJ4211_RS01240 Genome accession   NZ_CP012805
Coordinates   226499..227521 (+) Length   340 a.a.
NCBI ID   WP_041783985.1    Uniprot ID   A0AAP6EMB9
Organism   Streptococcus anginosus strain J4211     
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 215275..257732 226499..227521 within 0


Gene organization within MGE regions


Location: 215275..257732
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SanJ4211_RS01205 (SanJ4211_0212) rpoC 217141..220779 (+) 3639 WP_021001229.1 DNA-directed RNA polymerase subunit beta' -
  SanJ4211_RS01210 (SanJ4211_0213) - 220927..222126 (+) 1200 WP_057489559.1 phosphoglycerate kinase -
  SanJ4211_RS01215 (SanJ4211_0214) - 222641..223171 (+) 531 WP_003032280.1 FUSC family protein -
  SanJ4211_RS01220 (SanJ4211_0215) - 223248..223607 (+) 360 WP_003028467.1 MerR family transcriptional regulator -
  SanJ4211_RS01225 (SanJ4211_0216) glnA 223646..224992 (+) 1347 WP_003027006.1 type I glutamate--ammonia ligase -
  SanJ4211_RS01230 (SanJ4211_0217) - 225181..225546 (+) 366 WP_003027003.1 DUF1033 family protein -
  SanJ4211_RS01235 (SanJ4211_0218) comYA 225616..226557 (+) 942 WP_003027001.1 competence type IV pilus ATPase ComGA Machinery gene
  SanJ4211_RS01240 (SanJ4211_0219) comYB 226499..227521 (+) 1023 WP_041783985.1 competence type IV pilus assembly protein ComGB Machinery gene
  SanJ4211_RS01245 (SanJ4211_0220) comYC 227518..227835 (+) 318 WP_003028473.1 competence type IV pilus major pilin ComGC Machinery gene
  SanJ4211_RS01250 (SanJ4211_0221) comYD 227795..228223 (+) 429 WP_021001232.1 competence type IV pilus minor pilin ComGD Machinery gene
  SanJ4211_RS01255 (SanJ4211_0222) comGE/cglE 228195..228488 (+) 294 WP_021001233.1 competence type IV pilus minor pilin ComGE Machinery gene
  SanJ4211_RS01260 (SanJ4211_0223) comGF/cglF 228472..228909 (+) 438 WP_041783987.1 competence type IV pilus minor pilin ComGF Machinery gene
  SanJ4211_RS01265 comGG 228890..229216 (+) 327 WP_021001234.1 competence type IV pilus minor pilin ComGG -
  SanJ4211_RS01270 (SanJ4211_0225) comYH 229288..230241 (+) 954 WP_021001235.1 class I SAM-dependent methyltransferase Machinery gene
  SanJ4211_RS01275 (SanJ4211_0226) - 230288..231487 (+) 1200 WP_057489560.1 acetate kinase -
  SanJ4211_RS01280 (SanJ4211_0227) glmS 231874..233688 (+) 1815 WP_049533317.1 glutamine--fructose-6-phosphate transaminase (isomerizing) -
  SanJ4211_RS01285 (SanJ4211_0228) - 234032..236164 (+) 2133 WP_057489561.1 ATP-dependent Clp protease ATP-binding subunit -
  SanJ4211_RS01290 (SanJ4211_0229) ulaG 236205..236759 (+) 555 Protein_224 L-ascorbate 6-phosphate lactonase -
  SanJ4211_RS01295 (SanJ4211_0230) tkt 236870..238846 (+) 1977 WP_021001237.1 transketolase -
  SanJ4211_RS01300 (SanJ4211_0231) - 238942..239430 (+) 489 WP_003026974.1 prolyl-tRNA synthetase associated domain-containing protein -
  SanJ4211_RS01305 (SanJ4211_0232) yajC 239533..239871 (+) 339 WP_003026971.1 preprotein translocase subunit YajC -
  SanJ4211_RS01310 (SanJ4211_0233c) - 240253..241470 (-) 1218 WP_001291561.1 tyrosine-type recombinase/integrase -
  SanJ4211_RS01315 (SanJ4211_0235c) - 241552..241755 (-) 204 WP_000814511.1 excisionase -
  SanJ4211_RS10155 - 241739..241990 (+) 252 WP_001845478.1 hypothetical protein -
  SanJ4211_RS10265 (SanJ4211_0236) - 242024..242152 (+) 129 WP_000301356.1 hypothetical protein -
  SanJ4211_RS01320 - 242216..242446 (-) 231 WP_000857133.1 helix-turn-helix domain-containing protein -
  SanJ4211_RS01325 (SanJ4211_0237c) - 242443..242865 (-) 423 WP_000804885.1 sigma-70 family RNA polymerase sigma factor -
  SanJ4211_RS01330 (SanJ4211_0238) - 243369..243722 (+) 354 WP_001227347.1 helix-turn-helix transcriptional regulator -
  SanJ4211_RS09720 - 243782..243949 (-) 168 WP_000336323.1 cysteine-rich KTR domain-containing protein -
  SanJ4211_RS01335 (SanJ4211_0239c) tet(M) 244068..245987 (-) 1920 WP_000691736.1 tetracycline resistance ribosomal protection protein Tet(M) -
  SanJ4211_RS10310 - 246003..246050 (-) 48 Protein_237 hypothetical protein -
  SanJ4211_RS01340 (SanJ4211_0240c) - 246364..247299 (-) 936 WP_001224320.1 conjugal transfer protein -
  SanJ4211_RS01345 (SanJ4211_0241c) - 247296..248297 (-) 1002 WP_020999616.1 lysozyme family protein -
  SanJ4211_RS01350 (SanJ4211_0242c) - 248294..250471 (-) 2178 WP_000804748.1 CD3337/EF1877 family mobilome membrane protein -
  SanJ4211_RS01355 (SanJ4211_0243c) - 250474..252921 (-) 2448 WP_000331160.1 ATP-binding protein -
  SanJ4211_RS01360 - 252905..253297 (-) 393 WP_000723888.1 conjugal transfer protein -
  SanJ4211_RS01365 (SanJ4211_0245c) - 253386..253883 (-) 498 WP_000342539.1 antirestriction protein ArdA -
  SanJ4211_RS01370 (SanJ4211_0246c) - 254000..254221 (-) 222 WP_001009056.1 hypothetical protein -
  SanJ4211_RS01375 (SanJ4211_0247c) mobT 254264..255469 (-) 1206 WP_000398284.1 MobT family relaxase -
  SanJ4211_RS09730 - 255492..255644 (-) 153 WP_000879507.1 hypothetical protein -
  SanJ4211_RS01380 (SanJ4211_0248c) - 255647..257032 (-) 1386 WP_000813488.1 FtsK/SpoIIIE domain-containing protein -
  SanJ4211_RS01385 (SanJ4211_0249c) - 257061..257447 (-) 387 WP_000985015.1 YdcP family protein -

Sequence

Protein


Download         Length: 340 a.a.        Molecular weight: 39122.46 Da        Isoelectric Point: 9.6306

>NTDB_id=157671 SanJ4211_RS01240 WP_041783985.1 226499..227521(+) (comYB) [Streptococcus anginosus strain J4211]
MQQDMSLLSRQKRKKLSIVRQKKVVELLNNLFSSGFHLAEMIDFLKRSALLEKTYVEKMKEGLATGKPFSEIMASLGFSD
SVVTQLSLAELHGNLSLSLTKIEEYLENVSKVKKKLIEVATYPFILLIFLVFIMLGLRNYLLPQLERQNSATQLISQLPQ
IFLGSLVVVLVLLAIGFYWFRKSSKIVVFSFLARLPFCGTFIQTYLTAYYAREWGNMIGQGLELSQIFQMMQGQRSAMFQ
EIGKDLEIALQNGQEFSQVVKYYPFFKKELGLIIEYGEVKSKLGCELEVYAQKTWETFFKRVHQAMNVIQPLVFVFVALM
IVLLYAAMLLPIYQNMEVQL

Nucleotide


Download         Length: 1023 bp        

>NTDB_id=157671 SanJ4211_RS01240 WP_041783985.1 226499..227521(+) (comYB) [Streptococcus anginosus strain J4211]
ATGCAGCAGGACATGTCACTTTTGAGCAGGCAGAAACGGAAAAAATTATCCATAGTTAGGCAGAAAAAAGTCGTAGAGTT
GCTGAATAATCTTTTTTCTAGCGGCTTTCATTTAGCAGAAATGATTGATTTTTTGAAGCGGAGTGCCCTCCTAGAAAAAA
CCTATGTGGAAAAGATGAAAGAGGGTTTAGCAACAGGAAAACCTTTTTCAGAAATTATGGCTAGTTTAGGATTTTCAGAT
AGTGTTGTCACTCAGCTTTCACTGGCAGAGCTACATGGGAATCTCTCACTCAGCCTGACTAAGATTGAGGAATACTTGGA
AAATGTCTCAAAAGTCAAGAAAAAGTTAATTGAGGTAGCCACTTATCCATTCATTTTACTTATTTTTTTAGTATTCATTA
TGTTAGGGCTGCGCAATTATTTACTTCCGCAGTTAGAACGCCAAAATAGTGCAACGCAGCTGATTAGTCAGTTGCCGCAA
ATTTTTCTGGGTTCACTAGTAGTAGTCCTTGTTTTGTTAGCGATAGGTTTTTATTGGTTTAGAAAAAGCTCAAAAATAGT
AGTGTTTAGCTTCTTGGCTCGACTTCCTTTTTGTGGAACTTTTATTCAAACCTATTTGACAGCTTATTATGCGAGAGAAT
GGGGGAATATGATTGGTCAAGGTTTAGAACTTAGTCAGATTTTTCAAATGATGCAAGGGCAACGCTCTGCTATGTTTCAA
GAAATTGGAAAAGATTTAGAAATTGCGTTGCAAAATGGTCAGGAATTTTCACAAGTAGTGAAATATTATCCGTTTTTTAA
AAAGGAATTGGGCTTGATAATTGAATACGGTGAAGTGAAATCCAAATTGGGGTGTGAATTAGAAGTTTATGCCCAAAAAA
CATGGGAGACATTTTTTAAACGTGTTCATCAAGCGATGAATGTCATTCAACCACTAGTGTTTGTCTTTGTGGCTCTAATG
ATTGTATTGTTGTATGCAGCCATGTTGCTGCCAATTTATCAAAATATGGAGGTTCAATTATGA

Domains

Predicted by InterproScan.

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

(26-143)

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

(211-331)


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

73.529

100

0.735
  comGB/cglB Streptococcus mitis NCTC 12261

69.527

99.412

0.691
  comGB/cglB Streptococcus mitis SK321

67.857

98.824

0.671
  comGB/cglB Streptococcus pneumoniae TIGR4

67.56

98.824

0.668
  comGB/cglB Streptococcus pneumoniae R6

67.56

98.824

0.668
  comGB/cglB Streptococcus pneumoniae Rx1

67.56

98.824

0.668
  comGB/cglB Streptococcus pneumoniae D39

67.56

98.824

0.668
  comYB Streptococcus mutans UA159

60.882

100

0.609
  comYB Streptococcus mutans UA140

60.588

100

0.606
  comGB Lactococcus lactis subsp. cremoris KW2

52.802

99.706

0.526

Multiple sequence alignment