Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoS   Type   Regulator
Locus tag   QMY43_RS01130 Genome accession   NZ_CP125856
Coordinates   228399..229388 (+) Length   329 a.a.
NCBI ID   WP_005478537.1    Uniprot ID   A8D8R0
Organism   Vibrio parahaemolyticus strain G855     
Function   regulation of chitinases (predicted from homology)   
Competence regulation

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)
Prophage 227395..265903 228399..229388 within 0


Gene organization within MGE regions


Location: 227395..265903
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QMY43_RS01125 (QMY43_01125) - 227395..228318 (+) 924 WP_005455560.1 peptidoglycan DD-metalloendopeptidase family protein -
  QMY43_RS01130 (QMY43_01130) rpoS 228399..229388 (+) 990 WP_005478537.1 RNA polymerase sigma factor RpoS Regulator
  QMY43_RS01135 (QMY43_01135) mutS 229468..232053 (-) 2586 WP_159408075.1 DNA mismatch repair protein MutS -
  QMY43_RS01140 (QMY43_01140) - 232226..233566 (+) 1341 WP_114867860.1 site-specific integrase -
  QMY43_RS01145 (QMY43_01145) - 233638..234669 (+) 1032 WP_162999012.1 IS630 family transposase -
  QMY43_RS01150 (QMY43_01150) - 234757..235553 (+) 797 Protein_198 IS5 family transposase -
  QMY43_RS01155 (QMY43_01155) - 235610..236623 (-) 1014 WP_122020040.1 hypothetical protein -
  QMY43_RS01160 (QMY43_01160) - 237028..237696 (+) 669 WP_159408266.1 inovirus Gp2 family protein -
  QMY43_RS01165 (QMY43_01165) - 237872..238006 (+) 135 Protein_201 IS4 family transposase -
  QMY43_RS01170 (QMY43_01170) - 238015..239175 (-) 1161 WP_122020038.1 IS30 family transposase -
  QMY43_RS01175 (QMY43_01175) - 239177..240429 (+) 1253 Protein_203 IS4 family transposase -
  QMY43_RS01180 (QMY43_01180) - 240466..241623 (-) 1158 WP_122020037.1 hypothetical protein -
  QMY43_RS01185 (QMY43_01185) - 241620..242444 (-) 825 WP_122020036.1 WYL domain-containing protein -
  QMY43_RS01190 (QMY43_01190) - 242558..242989 (-) 432 WP_039548379.1 DUF2787 domain-containing protein -
  QMY43_RS01195 (QMY43_01195) radC 242986..243459 (-) 474 WP_122020035.1 DNA repair protein RadC -
  QMY43_RS01200 (QMY43_01200) - 243605..243781 (+) 177 WP_025542599.1 AlpA family transcriptional regulator -
  QMY43_RS01205 (QMY43_01205) - 243818..243994 (+) 177 WP_283277109.1 AlpA family phage regulatory protein -
  QMY43_RS01210 (QMY43_01210) - 244159..244383 (+) 225 WP_039540862.1 hypothetical protein -
  QMY43_RS01215 (QMY43_01215) - 244564..244878 (+) 315 WP_283277111.1 DUF2787 family protein -
  QMY43_RS01220 (QMY43_01220) - 244958..245860 (+) 903 WP_236578134.1 LPD25 domain-containing protein -
  QMY43_RS01225 (QMY43_01225) - 246035..246619 (+) 585 WP_122020033.1 DUF2913 family protein -
  QMY43_RS01230 (QMY43_01230) - 246629..246967 (+) 339 WP_114867850.1 hypothetical protein -
  QMY43_RS01235 (QMY43_01235) - 247178..247549 (+) 372 WP_236578135.1 RecX family transcriptional regulator -
  QMY43_RS01245 (QMY43_01245) tssI 247972..250230 (+) 2259 WP_122020031.1 type VI secretion system tip protein VgrG -
  QMY43_RS01250 (QMY43_01250) - 250212..250799 (+) 588 WP_140219975.1 DUF4123 domain-containing protein -
  QMY43_RS01255 (QMY43_01255) - 250799..253339 (+) 2541 WP_122020029.1 LysM domain-containing protein -
  QMY43_RS01260 (QMY43_01260) - 253394..254458 (-) 1065 WP_114867845.1 SUMF1/EgtB/PvdO family nonheme iron enzyme -
  QMY43_RS01265 (QMY43_01265) - 254892..255329 (-) 438 WP_114867844.1 DUF2787 family protein -
  QMY43_RS01270 (QMY43_01270) - 255822..258908 (+) 3087 WP_122020028.1 type I restriction endonuclease subunit R -
  QMY43_RS01275 (QMY43_01275) - 258901..260196 (+) 1296 WP_122020027.1 restriction endonuclease subunit S -
  QMY43_RS01280 (QMY43_01280) - 260193..261404 (+) 1212 WP_114867840.1 AAA family ATPase -
  QMY43_RS01285 (QMY43_01285) - 261421..263061 (+) 1641 WP_114867839.1 type I restriction-modification system subunit M -
  QMY43_RS01290 (QMY43_01290) - 263139..263267 (-) 129 Protein_225 integrase -
  QMY43_RS01295 (QMY43_01295) pncC 263587..264069 (+) 483 WP_140104007.1 nicotinamide-nucleotide amidase -
  QMY43_RS01300 (QMY43_01300) recA 264269..265312 (+) 1044 WP_005478550.1 recombinase RecA Machinery gene
  QMY43_RS01305 (QMY43_01305) recX 265436..265903 (+) 468 WP_005455548.1 recombination regulator RecX -

Sequence

Protein


Download         Length: 329 a.a.        Molecular weight: 37560.38 Da        Isoelectric Point: 4.6096

>NTDB_id=833002 QMY43_RS01130 WP_005478537.1 228399..229388(+) (rpoS) [Vibrio parahaemolyticus strain G855]
MSISNTVSKVEEFEYDNASETTIDNELEKSSSTTEGKTAVREEFDASSKSLDATQLYLGEIGFSPLLTAEEEVLYARRAL
RGDEAARKRMIESNLRLVVKISRRYSNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERALMNQTRT
IRLPIHVVKELNIYLRTARELSQKLDHEPTAEEIAAQLDIPVEDVSKMLRLNERISSVDTPIGGDGEKALLDIIPDANNS
DPEVSTQDDDIKSSLIHWLEELNPKQKEVLARRFGLLGYEPSTLEEVGREIGLTRERVRQIQVEGLRRLREILIKQGLNM
ENLFNVEDD

Nucleotide


Download         Length: 990 bp        

>NTDB_id=833002 QMY43_RS01130 WP_005478537.1 228399..229388(+) (rpoS) [Vibrio parahaemolyticus strain G855]
ATGAGTATCAGCAACACAGTATCCAAAGTTGAAGAGTTTGAATACGACAATGCGTCAGAGACGACCATTGATAACGAACT
CGAAAAATCATCATCTACTACCGAAGGCAAAACAGCTGTCCGTGAAGAGTTTGACGCGAGCAGTAAAAGCCTAGACGCAA
CTCAATTGTATCTAGGTGAAATTGGCTTCTCACCTCTACTTACTGCTGAAGAAGAAGTCCTTTACGCCCGCAGAGCATTG
CGTGGTGATGAAGCGGCTCGTAAGCGCATGATCGAAAGTAACTTGCGTTTAGTAGTAAAAATTTCTCGTCGGTACAGCAA
CCGTGGCCTAGCGCTACTCGATCTTATTGAAGAAGGTAACCTCGGCTTGATCCGAGCGGTTGAAAAATTCGATCCAGAAA
GAGGCTTCCGTTTCTCAACTTACGCAACATGGTGGATCCGTCAAACGATCGAACGTGCGTTGATGAACCAAACTCGCACC
ATTCGCTTGCCTATTCATGTCGTGAAAGAGCTGAACATTTATCTGCGTACTGCGCGTGAACTTTCTCAAAAGCTCGATCA
TGAACCAACTGCAGAAGAAATTGCTGCTCAATTAGATATACCAGTAGAAGATGTCAGCAAAATGCTGCGTCTTAACGAGC
GTATTAGCTCCGTTGATACCCCAATTGGTGGTGACGGTGAAAAAGCGCTTCTGGATATTATTCCTGACGCAAATAACTCT
GATCCAGAAGTGTCGACTCAAGATGATGACATCAAATCTTCTTTGATCCATTGGTTGGAAGAGTTGAATCCAAAACAAAA
AGAAGTGCTTGCACGCCGTTTTGGTTTGCTTGGTTATGAGCCGTCTACGCTTGAAGAAGTGGGACGAGAGATTGGTCTTA
CCCGTGAGCGTGTACGTCAAATTCAAGTGGAGGGTTTACGTCGACTTCGTGAAATCCTAATTAAACAAGGCCTAAATATG
GAAAACTTGTTTAACGTTGAAGACGATTAA

Domains

Predicted by InterproScan.

Sigma-70 factor, region 1.2 (Sigma70_r1_2)

(52-85)

Sigma-70 region 2 (Sigma70_r2)

(90-159)

Sigma-70, region 4 (Sigma70_r4)

(258-311)

Sigma-70 region 3 (Sigma70_r3)

(170-243)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A8D8R0

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
  rpoS Vibrio cholerae O1 biovar El Tor strain E7946

83.832

100

0.851