Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   IHE41_RS12980 Genome accession   NZ_CP062153
Coordinates   2790249..2791253 (-) Length   334 a.a.
NCBI ID   WP_079856737.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 17-VB00214     
Function   DNA uptake (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)
Genomic island 2766524..2790191 2790249..2791253 flank 58


Gene organization within MGE regions


Location: 2766524..2791253
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IHE41_RS12880 (IHE41_12855) - 2766524..2769340 (+) 2817 WP_005379023.1 TrlF family AAA-like ATPase -
  IHE41_RS12885 (IHE41_12860) - 2769728..2771260 (+) 1533 WP_005379021.1 hypothetical protein -
  IHE41_RS12890 (IHE41_12865) - 2771702..2771914 (+) 213 WP_005379019.1 cold-shock protein -
  IHE41_RS12895 (IHE41_12870) - 2772033..2772233 (+) 201 WP_005379017.1 hypothetical protein -
  IHE41_RS12900 (IHE41_12875) - 2772330..2772488 (+) 159 WP_005379015.1 hypothetical protein -
  IHE41_RS12905 (IHE41_12880) - 2772676..2772885 (-) 210 WP_005379013.1 hypothetical protein -
  IHE41_RS12910 (IHE41_12885) - 2773304..2773459 (-) 156 WP_005379011.1 hypothetical protein -
  IHE41_RS12915 (IHE41_12890) - 2773663..2773872 (-) 210 WP_005379008.1 cold-shock protein -
  IHE41_RS12920 (IHE41_12895) - 2774240..2774799 (+) 560 Protein_2478 tyrosine-type recombinase/integrase -
  IHE41_RS12925 (IHE41_12900) hflK 2775326..2776384 (+) 1059 WP_005379004.1 FtsH protease activity modulator HflK -
  IHE41_RS12930 (IHE41_12905) hflC 2776381..2777373 (+) 993 WP_005379003.1 protease modulator HflC -
  IHE41_RS12935 (IHE41_12910) nhaA 2777366..2778709 (+) 1344 WP_005379001.1 Na+/H+ antiporter NhaA -
  IHE41_RS12940 (IHE41_12915) acnA 2778786..2781509 (-) 2724 WP_005378999.1 aconitate hydratase AcnA -
  IHE41_RS12945 (IHE41_12920) - 2781754..2781966 (-) 213 WP_005378997.1 cold-shock protein -
  IHE41_RS12950 (IHE41_12925) - 2782425..2782589 (+) 165 WP_165603430.1 hypothetical protein -
  IHE41_RS12955 (IHE41_12930) - 2782815..2783024 (-) 210 WP_005378991.1 hypothetical protein -
  IHE41_RS12960 (IHE41_12935) - 2783535..2784896 (-) 1362 WP_005378988.1 site-specific integrase -
  IHE41_RS12965 (IHE41_12940) - 2784896..2785426 (-) 531 WP_005378980.1 hypothetical protein -
  IHE41_RS12970 (IHE41_12945) - 2785438..2787849 (-) 2412 WP_005378979.1 hypothetical protein -
  IHE41_RS12975 (IHE41_12950) - 2787843..2790191 (-) 2349 WP_005378978.1 hypothetical protein -
  IHE41_RS12980 (IHE41_12955) comM 2790249..2791253 (-) 1005 WP_079856737.1 YifB family Mg chelatase-like AAA ATPase Machinery gene

Sequence

Protein


Download         Length: 334 a.a.        Molecular weight: 36164.66 Da        Isoelectric Point: 8.7215

>NTDB_id=486506 IHE41_RS12980 WP_079856737.1 2790249..2791253(-) (comM) [Vibrio parahaemolyticus strain 17-VB00214]
MGLAIIHSRASVGVQAPSVSVEVHISNGMPGFTLVGLPETTVKESKDRVRSAIINSNFQFPAKRITVNLAPADLPKEGGR
FDLPIALGILAASEQIATDRLKNYEFVGELALSGGLRPVKGVLPAALAASKVGRHLVVPHVNGDQAALVGKEQHKSAQSL
LEVCAELCGQHRLNLYQTPKRKTVEKHGRDLQDIIGQQQGKRALEIAAAGNHNLLFLGPPGTGKTMLASRLCDLLPEMSD
EEAMETASVASLTQSEINEHNWKSRPFRAPHHSSSMAALVGGGSVPRPGEISLAHNGLLFLDETQKISMIETYQFFINLL
NHMNFMIKKIHFLH

Nucleotide


Download         Length: 1005 bp        

>NTDB_id=486506 IHE41_RS12980 WP_079856737.1 2790249..2791253(-) (comM) [Vibrio parahaemolyticus strain 17-VB00214]
ATGGGGCTGGCAATCATTCATAGTCGGGCAAGTGTCGGGGTGCAAGCGCCGTCAGTTAGTGTGGAAGTGCATATCAGTAA
TGGCATGCCCGGCTTTACTCTCGTTGGGTTGCCGGAGACTACGGTAAAGGAATCCAAAGATCGTGTACGCAGTGCGATCA
TCAACTCAAATTTCCAGTTTCCAGCCAAGCGCATTACGGTCAATTTGGCCCCGGCGGATTTACCTAAAGAAGGCGGACGT
TTTGATTTGCCTATCGCATTGGGTATTTTGGCGGCTTCAGAGCAAATCGCGACAGATAGGCTCAAAAACTACGAATTTGT
TGGCGAATTAGCCCTGTCTGGAGGATTAAGACCTGTCAAAGGCGTGCTTCCAGCCGCGTTGGCTGCAAGCAAAGTCGGAC
GTCATTTGGTGGTGCCTCATGTCAATGGCGATCAAGCGGCGCTGGTGGGCAAAGAGCAACATAAGTCAGCGCAATCCTTA
CTTGAGGTGTGTGCGGAGTTATGTGGTCAGCATCGTCTCAATCTTTATCAAACTCCGAAGCGAAAAACGGTTGAAAAGCA
TGGTCGAGATCTACAAGACATCATTGGCCAGCAACAAGGCAAGCGTGCTCTAGAAATTGCGGCGGCTGGAAACCACAACC
TACTTTTCCTTGGTCCTCCTGGTACAGGAAAAACCATGCTGGCGTCGCGTTTATGCGACTTACTGCCGGAGATGAGCGAT
GAAGAAGCGATGGAAACGGCTTCAGTCGCATCACTGACGCAAAGTGAGATTAATGAGCACAACTGGAAGTCGCGTCCGTT
TCGTGCGCCGCACCATTCCAGTTCGATGGCGGCATTAGTTGGTGGTGGCTCGGTGCCAAGACCAGGTGAGATTTCTTTGG
CTCACAATGGGTTATTGTTCCTTGATGAAACTCAGAAAATCTCAATGATTGAAACATATCAATTCTTTATTAACTTATTG
AACCATATGAATTTTATGATTAAAAAAATCCATTTTTTACATTGA

Domains

Predicted by InterproScan.

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-308)

Subunit ChlI of Mg-chelatase (ChlI)

(21-142)


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
  comM Vibrio campbellii strain DS40M4

95.38

90.719

0.865
  comM Vibrio cholerae strain A1552

85.149

90.719

0.772
  comM Haemophilus influenzae Rd KW20

67.101

91.916

0.617
  comM Glaesserella parasuis strain SC1401

65.359

91.617

0.599
  comM Legionella pneumophila str. Paris

54.125

90.719

0.491
  comM Legionella pneumophila strain ERS1305867

54.125

90.719

0.491
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

44.66

92.515

0.413