Detailed information    

experimental Experimentally validated

Overview

Name   pilM   Type   Machinery gene
Locus tag   DSB67_RS14000 Genome accession   NZ_CP030788
Coordinates   2896640..2897656 (-) Length   338 a.a.
NCBI ID   WP_010643494.1    Uniprot ID   -
Organism   Vibrio campbellii strain DS40M4     
Function   type IV pilus biogenesis and function   
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: 2891640..2902656
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DSB67_RS13975 (DSB67_13980) aroK 2892506..2893024 (-) 519 WP_010443904.1 shikimate kinase AroK -
  DSB67_RS13980 (DSB67_13985) pilQ 2893213..2894955 (-) 1743 WP_010643500.1 type IV pilus secretin PilQ Machinery gene
  DSB67_RS13985 (DSB67_13990) pilP 2894990..2895505 (-) 516 WP_010643498.1 pilus assembly protein PilP Machinery gene
  DSB67_RS13990 (DSB67_13995) pilO 2895516..2896088 (-) 573 WP_010643497.1 type 4a pilus biogenesis protein PilO Machinery gene
  DSB67_RS13995 (DSB67_14000) pilN 2896081..2896656 (-) 576 WP_010643496.1 PilN domain-containing protein Machinery gene
  DSB67_RS14000 (DSB67_14005) pilM 2896640..2897656 (-) 1017 WP_010643494.1 type IV pilus biogenesis protein PilM Machinery gene
  DSB67_RS14005 (DSB67_14010) - 2897835..2900402 (+) 2568 WP_010643492.1 penicillin-binding protein 1A -
  DSB67_RS14010 (DSB67_14015) oxyR 2900480..2901388 (-) 909 WP_010643491.1 DNA-binding transcriptional regulator OxyR -
  DSB67_RS14015 (DSB67_14020) - 2901563..2902291 (+) 729 WP_005432732.1 redoxin family protein -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  tfoX pilM positive effect
  tfoX pilB positive effect
  tfoX dprA positive effect
  tfoX pilC positive effect
  tfoX pilD positive effect
  tfoX pilO positive effect
  tfoX comM 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: 338 a.a.        Molecular weight: 37967.48 Da        Isoelectric Point: 6.9130

>NTDB_id=1404 DSB67_RS14000 WP_010643494.1 2896640..2897656(-) (pilM) [Vibrio campbellii strain DS40M4]
MDKLLVTGIDIGHNSLKAVVLKPNGNSYALLGYKEIILKEGIVAENNTINHQEIVKTLKEMKKELPFRARKVAISVPDNA
VISKKLQIEQNLEESEKEFAVVQAFSHQSPFPVEELSLDFIKVDTDEQMRGNDSYQVFATRKDVVETRVEALQKSGLKPV
LVDVHSQSLGHIWKLVAKRFPEKNKYCLLDIRSLNSSFTMFTEQGELFHKEFPCGSRTTGSLFQQDPLVDDAQVATEQFN
RQIVERVKRQMQLYTSINGSQDIKGVWLSGEGAATPMLAEELSSQLALECELLNPLGLFEMKVSKRKRRAADWQHFTAAA
GLAVRGIQWLGGDNAVSH

Nucleotide


Download         Length: 1017 bp        

>NTDB_id=1404 DSB67_RS14000 WP_010643494.1 2896640..2897656(-) (pilM) [Vibrio campbellii strain DS40M4]
ATGGATAAGCTATTAGTTACGGGCATAGATATTGGCCATAACAGCCTCAAAGCCGTGGTACTTAAACCCAATGGCAACAG
TTACGCACTACTGGGTTACAAAGAAATAATACTTAAGGAAGGTATTGTCGCTGAAAATAACACCATAAATCATCAAGAAA
TTGTAAAGACCCTTAAAGAGATGAAAAAAGAGCTACCTTTTCGTGCTCGAAAGGTCGCAATTTCAGTTCCAGATAATGCT
GTGATCAGTAAAAAGCTGCAGATAGAGCAGAACTTAGAAGAGAGTGAAAAGGAGTTTGCTGTTGTGCAAGCCTTCTCACA
TCAGTCTCCATTCCCCGTGGAAGAGCTGAGTCTTGACTTCATCAAGGTTGATACGGATGAGCAGATGCGAGGCAATGACA
GTTATCAGGTCTTCGCGACTCGTAAAGACGTGGTAGAAACCCGAGTTGAGGCATTGCAGAAATCAGGCTTGAAACCAGTA
CTGGTGGACGTGCACTCACAAAGCCTCGGTCATATCTGGAAATTGGTTGCGAAACGTTTTCCTGAAAAGAACAAGTATTG
TTTACTGGACATTCGTTCTTTGAACAGTTCTTTCACGATGTTCACCGAACAAGGTGAATTGTTTCATAAAGAATTTCCCT
GCGGCTCTCGCACTACGGGCAGTTTGTTTCAACAAGATCCATTAGTAGACGATGCACAAGTGGCAACGGAGCAATTTAAT
CGACAAATCGTTGAGCGTGTTAAACGTCAGATGCAGCTCTATACCTCAATTAATGGAAGCCAGGATATCAAAGGCGTTTG
GCTTTCGGGAGAGGGAGCTGCAACACCTATGTTGGCCGAGGAGCTGTCTAGCCAGTTGGCACTAGAGTGTGAACTGCTTA
ATCCACTTGGTTTGTTTGAAATGAAGGTCTCTAAACGCAAACGTCGTGCCGCGGATTGGCAACACTTCACTGCTGCAGCC
GGACTGGCTGTACGTGGTATTCAGTGGCTAGGAGGTGACAATGCTGTATCACATTAA

Domains

Predicted by InterproScan.

Type IV pilus assembly protein PilM; (PilM_2)

(8-326)


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
  pilM Vibrio cholerae strain A1552

48.521

100

0.485

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]