Detailed information    

experimental Experimentally validated

Overview

Name   comM   Type   Machinery gene
Locus tag   DSB67_RS15690 Genome accession   NZ_CP030788
Coordinates   3228571..3230094 (-) Length   507 a.a.
NCBI ID   WP_005535577.1    Uniprot ID   A0A812GMI9
Organism   Vibrio campbellii strain DS40M4     
Function   DNA uptake   
DNA binding and uptake

Function

Induction of TfoX expression resulted in upregulation of the genes required for DNA uptake and integration (comEC, comEA, comM, comF, and dprA) and pilus structure (pilABCD, pilMNOPQ, and minor pilins VC0857 to -0861) in DS40M4


Genomic Context

Location: 3223571..3235094
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DSB67_RS15665 (DSB67_15670) - 3223896..3224882 (+) 987 WP_010645768.1 serine/threonine protein kinase -
  DSB67_RS15670 (DSB67_15675) - 3224917..3225519 (+) 603 WP_010645769.1 thiol:disulfide interchange protein DsbA/DsbL -
  DSB67_RS15675 (DSB67_15680) - 3225588..3226466 (-) 879 WP_010645770.1 acyltransferase -
  DSB67_RS15680 (DSB67_15685) - 3226636..3227592 (+) 957 WP_010645772.1 DUF2860 domain-containing protein -
  DSB67_RS15685 (DSB67_15690) - 3227727..3228560 (+) 834 WP_010645773.1 sensor domain-containing diguanylate cyclase -
  DSB67_RS15690 (DSB67_15695) comM 3228571..3230094 (-) 1524 WP_005535577.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  DSB67_RS15695 (DSB67_15700) ilvG 3230557..3232203 (+) 1647 WP_010645775.1 acetolactate synthase 2 catalytic subunit -
  DSB67_RS15700 (DSB67_15705) ilvM 3232215..3232499 (+) 285 WP_005429819.1 acetolactate synthase 2 small subunit -
  DSB67_RS15705 (DSB67_15710) ilvE 3232512..3233450 (+) 939 WP_005429790.1 branched-chain-amino-acid transaminase -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  tfoX comM positive effect
  tfoX pilB positive effect
  tfoX dprA positive effect
  tfoX pilC positive effect
  tfoX pilD positive effect
  tfoX pilM positive effect
  tfoX pilO positive effect
  tfoX pilA positive effect
  tfoX pilQ positive effect
  tfoX comEC positive effect
  tfoX comEA positive effect
  tfoX pilP positive effect
  tfoX comF positive effect
  tfoX pilN positive effect

Sequence

Protein


Download         Length: 507 a.a.        Molecular weight: 54922.00 Da        Isoelectric Point: 8.8465

>NTDB_id=1397 DSB67_RS15690 WP_005535577.1 3228571..3230094(-) (comM) [Vibrio campbellii strain DS40M4]
MGLAIIHSRASVGVQAPSVSVEVHISNGMPGFTLVGLPETTVKESKDRVRSAIVNSNFQFPAKRITVNLAPADLPKEGGR
FDLPIALGILAASEQIATDKLKNYEFVGELALSGGLRTVKGVLPAALAANKKQRHLVVPHANGDQAALVGKEQHKSAQSL
LEVCAELCGQHQLNLYQTPKKKELKAHGRDLQDIIGQQQGKRALEIAAAGNHNLLFLGPPGTGKTMLASRLCDLLPEMSD
EEAMETASVASLTQSEINEHNWKTRPFRAPHHSSSMAALVGGGSVPRPGEISLAHNGLLFLDEMPEFDRKVLDSLREPLE
SGEIIISRAQGKTRFPARFQIVGALNPSPTGYYEGNQARTNPQAILRYLGRLSGPLLDRFDMSLEIPALPKGTLSEGGDR
GEPTAIVKERVNQARDCMLARSGKVNALLGSREIEAFCPLQKSDAEFLENALHRLGLSIRAYHRIIKVARTIADLEGSPQ
IERTHLAEALGYRAMDRLLKQLTAQAV

Nucleotide


Download         Length: 1524 bp        

>NTDB_id=1397 DSB67_RS15690 WP_005535577.1 3228571..3230094(-) (comM) [Vibrio campbellii strain DS40M4]
ATGGGGCTGGCAATCATTCATAGTCGAGCAAGTGTGGGTGTGCAAGCGCCATCGGTAAGCGTGGAAGTCCACATCAGTAA
TGGGATGCCGGGCTTTACCTTGGTGGGGTTACCTGAGACCACAGTAAAAGAATCCAAAGATCGCGTACGAAGTGCGATCG
TCAATTCTAACTTTCAGTTTCCTGCAAAACGAATCACGGTCAATTTGGCACCGGCGGATTTGCCCAAAGAAGGTGGGCGC
TTCGATCTGCCGATTGCATTGGGAATTTTAGCGGCTTCAGAGCAAATCGCGACAGATAAGCTCAAAAACTACGAATTTGT
TGGTGAATTAGCTCTTTCTGGTGGATTGAGAACGGTAAAAGGCGTGCTGCCAGCTGCGTTGGCTGCGAACAAAAAACAGC
GCCATTTAGTGGTGCCTCATGCTAATGGCGATCAGGCGGCACTTGTCGGCAAAGAGCAGCACAAATCTGCCCAATCACTA
TTGGAAGTTTGTGCTGAGCTGTGTGGCCAACATCAACTGAACTTGTATCAAACGCCCAAGAAAAAAGAGCTCAAAGCACA
CGGTCGTGACTTGCAGGATATCATTGGTCAGCAGCAAGGAAAGCGCGCTTTAGAAATTGCGGCTGCTGGCAATCACAACC
TGCTTTTCCTTGGCCCTCCAGGCACTGGCAAAACCATGTTGGCCTCTCGATTATGCGATTTGTTACCTGAGATGAGTGAT
GAAGAGGCGATGGAAACGGCTTCTGTGGCGTCACTGACTCAAAGTGAAATCAATGAACACAACTGGAAGACGCGGCCGTT
TCGTGCCCCGCATCATTCCAGCTCCATGGCAGCTTTAGTTGGTGGTGGATCTGTGCCGAGACCGGGCGAAATATCTCTAG
CTCACAACGGGTTATTGTTTTTGGACGAGATGCCGGAGTTTGATCGTAAGGTGCTCGACTCTTTACGTGAGCCATTGGAG
TCTGGTGAAATTATTATATCTCGGGCGCAAGGTAAGACGCGTTTTCCTGCTCGGTTCCAAATTGTAGGGGCGCTTAACCC
GAGTCCGACAGGGTATTACGAAGGCAACCAAGCTAGAACGAATCCGCAAGCCATCCTGCGTTACCTTGGCCGATTATCAG
GCCCACTTCTTGATCGCTTTGATATGTCATTAGAAATTCCTGCATTGCCGAAAGGAACCCTCTCTGAAGGTGGCGATAGA
GGGGAACCAACGGCTATCGTCAAAGAGCGGGTGAATCAAGCACGTGACTGTATGCTGGCTCGCAGTGGTAAGGTGAATGC
ATTATTGGGCAGTCGTGAAATTGAAGCCTTCTGCCCGTTGCAAAAAAGTGATGCGGAGTTTTTGGAAAATGCGCTGCATC
GCCTTGGATTGTCGATTCGTGCTTATCACCGCATCATCAAAGTTGCGCGTACTATTGCCGATCTGGAGGGCTCACCGCAA
ATTGAGCGAACACATCTTGCAGAAGCTTTGGGCTATCGAGCAATGGATAGGTTACTTAAACAGTTAACCGCGCAAGCCGT
TTAA

Domains

Predicted by InterproScan.

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-391)

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(402-493)

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
  AlphaFold DB A0A812GMI9

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 cholerae strain A1552

85.01

100

0.85
  comM Haemophilus influenzae Rd KW20

65.878

100

0.659
  comM Glaesserella parasuis strain SC1401

63.922

100

0.643
  comM Legionella pneumophila strain ERS1305867

50.201

99.006

0.497
  comM Legionella pneumophila str. Paris

50.201

99.006

0.497
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

43.701

100

0.438

Multiple sequence alignment    



References

[1] Chelsea A Simpson et al. (2019) Diversity in Natural Transformation Frequencies and Regulation across Vibrio Species. MBio 10(6):e02788-19. [PMID: 31848285]