Detailed information    

experimental Experimentally validated

Overview

Name   dprA   Type   Machinery gene
Locus tag   DSB67_RS15600 Genome accession   NZ_CP030788
Coordinates   3210941..3212050 (-) Length   369 a.a.
NCBI ID   WP_010645755.1    Uniprot ID   -
Organism   Vibrio campbellii strain DS40M4     
Function   ssDNA binding; loading RecA onto ssDNA   
DNA processing

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: 3205941..3217050
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DSB67_RS15570 (DSB67_15575) hemF 3206470..3207387 (-) 918 WP_010645751.1 oxygen-dependent coproporphyrinogen oxidase -
  DSB67_RS15575 (DSB67_15580) - 3207422..3207979 (-) 558 WP_005429817.1 L-threonylcarbamoyladenylate synthase -
  DSB67_RS15580 (DSB67_15585) purE 3208179..3208664 (+) 486 WP_005429815.1 5-(carboxyamino)imidazole ribonucleotide mutase -
  DSB67_RS15585 (DSB67_15590) - 3208669..3209796 (+) 1128 WP_010645752.1 5-(carboxyamino)imidazole ribonucleotide synthase -
  DSB67_RS15590 (DSB67_15595) - 3209867..3210436 (-) 570 WP_010645753.1 type I DNA topoisomerase -
  DSB67_RS15595 (DSB67_15600) - 3210459..3210938 (-) 480 WP_005429833.1 DUF494 family protein -
  DSB67_RS15600 (DSB67_15605) dprA 3210941..3212050 (-) 1110 WP_010645755.1 DNA-processing protein DprA Machinery gene
  DSB67_RS15605 (DSB67_15610) - 3212034..3213128 (-) 1095 WP_010645757.1 LysM peptidoglycan-binding domain-containing protein -
  DSB67_RS15610 (DSB67_15615) def 3213267..3213785 (+) 519 WP_005450979.1 peptide deformylase -
  DSB67_RS15615 (DSB67_15620) fmt 3213819..3214766 (+) 948 WP_010645760.1 methionyl-tRNA formyltransferase -
  DSB67_RS15620 (DSB67_15625) rsmB 3214848..3216131 (+) 1284 WP_005535508.1 16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  tfoX dprA positive effect
  tfoX pilB positive effect
  tfoX pilC positive effect
  tfoX pilD positive effect
  tfoX pilM 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: 369 a.a.        Molecular weight: 39432.10 Da        Isoelectric Point: 5.5790

>NTDB_id=1399 DSB67_RS15600 WP_010645755.1 3210941..3212050(-) (dprA) [Vibrio campbellii strain DS40M4]
MTPQNDIDLAAWLKLSCLPGIGGVKMNKLLSKDTPSNIVQYSTEQLQLLGLTAKQLQAWSQVDKEVDACLTWVAASSHHH
ILTLADALYPPLLKQTVAPPPLLFVKGEASCLPQPQIAMVGSRNASVDGLQHTRTFASDLVQHDLIVTSGLALGIDGHAH
DGALLAGGKTIAVLGSGLEQVYPARHRGLAQRVAENGALVSEFRPDAKPRAENFPRRNRIISGLSLGVLVVEAAEKSGSL
ITARYALEQGREVFALPASINAPNASGGNQLIQNGACLVQNTQEVLNEIQSLLDWSINQSLDLFSAPIDEEELPFPQLLA
NVGNEATPVDILASRTNIPVQEVMMQLLELELSGHVVAVSGGYIRKGRG

Nucleotide


Download         Length: 1110 bp        

>NTDB_id=1399 DSB67_RS15600 WP_010645755.1 3210941..3212050(-) (dprA) [Vibrio campbellii strain DS40M4]
ATGACACCACAAAATGATATTGATCTCGCTGCCTGGTTAAAGCTTAGTTGTTTACCGGGCATCGGTGGGGTCAAGATGAA
TAAGCTGCTCAGCAAAGATACGCCGAGCAATATTGTCCAATACTCGACAGAGCAGCTTCAGCTTTTGGGCTTAACGGCAA
AACAGCTGCAAGCATGGTCGCAGGTCGATAAAGAAGTCGATGCTTGTCTGACTTGGGTTGCAGCTTCTTCTCATCATCAT
ATTCTTACGTTGGCGGATGCTTTGTATCCGCCACTTCTCAAACAAACCGTCGCACCGCCTCCTTTACTCTTTGTAAAAGG
AGAGGCGAGCTGTTTGCCTCAACCTCAAATAGCTATGGTTGGCAGCCGTAATGCCAGTGTGGATGGGCTACAACACACAA
GAACTTTTGCATCTGACTTGGTGCAACACGATCTGATCGTCACTAGTGGCTTAGCATTGGGTATTGATGGCCATGCTCAT
GATGGTGCGCTGTTAGCTGGAGGTAAAACCATCGCAGTGCTTGGCTCGGGATTAGAACAAGTGTACCCAGCAAGACACCG
CGGCTTGGCGCAGCGAGTGGCTGAAAATGGAGCGCTTGTTTCAGAGTTTCGTCCAGATGCTAAGCCTCGCGCAGAAAACT
TTCCACGTCGTAATCGAATCATCAGTGGTTTGTCACTGGGTGTTTTGGTGGTGGAAGCGGCTGAAAAAAGTGGCTCCTTG
ATTACGGCGCGTTATGCTTTAGAACAAGGTCGAGAAGTTTTCGCTCTGCCAGCTTCGATTAATGCACCCAACGCCAGTGG
CGGTAATCAATTGATTCAGAACGGGGCTTGTCTCGTACAAAATACTCAAGAGGTGCTGAATGAAATACAGTCTTTGCTCG
ACTGGTCTATTAATCAGAGCTTAGATTTATTTTCTGCGCCAATTGATGAAGAAGAATTGCCATTTCCTCAGCTGTTAGCT
AACGTAGGAAATGAGGCTACACCAGTTGATATTCTTGCAAGCAGGACCAATATACCTGTCCAAGAAGTCATGATGCAGCT
CTTAGAGCTTGAGCTTTCAGGGCATGTTGTTGCAGTATCCGGTGGCTATATTCGAAAGGGGAGGGGCTAG

Domains

Predicted by InterproScan.

DprA winged helix domain (DprA_WH)

(307-362)

DNA recombination-mediator protein A (DNA_processg_A)

(77-280)


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
  dprA Vibrio cholerae strain A1552

58.108

100

0.583
  dprA Glaesserella parasuis strain SC1401

47.185

100

0.477
  dprA Haemophilus influenzae Rd KW20

43.617

100

0.44
  dprA Legionella pneumophila strain ERS1305867

46.505

91.136

0.424
  dprA Thermus thermophilus HB27

38.547

100

0.413
  dprA Neisseria meningitidis strain C311

37.084

100

0.393
  dprA Neisseria meningitidis MC58

37.084

100

0.393
  dprA Lactococcus lactis subsp. cremoris KW2

35.314

100

0.379
  dprA Neisseria gonorrhoeae MS11

36.176

100

0.379
  dprA Neisseria gonorrhoeae strain FA1090

35.917

100

0.377

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]