Detailed information    

insolico Bioinformatically predicted

Overview

Name   dprA   Type   Machinery gene
Locus tag   STU_RS13800 Genome accession   NC_006448
Coordinates   817884..818723 (+) Length   279 a.a.
NCBI ID   WP_011225887.1    Uniprot ID   Q5M4N4
Organism   Streptococcus thermophilus LMG 18311     
Function   ssDNA binding; loading RecA onto ssDNA (predicted from homology)   
DNA processing

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 789209..824358 817884..818723 within 0


Gene organization within MGE regions


Location: 789209..824358
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  STU_RS13645 (stu0861) - 789209..789607 (+) 399 WP_011225860.1 hypothetical protein -
  STU_RS19360 - 790120..791350 (-) 1231 Protein_754 ISL3 family transposase -
  STU_RS13660 (stu0868) - 791539..792546 (-) 1008 WP_011225865.1 YeiH family protein -
  STU_RS13665 (stu0869) - 792722..793433 (+) 712 Protein_756 glucosaminidase domain-containing protein -
  STU_RS19925 (stu0871) - 793502..794322 (+) 821 Protein_757 IS3 family transposase -
  STU_RS13680 (stu0872) - 794419..795327 (-) 909 WP_002950570.1 LysR family transcriptional regulator -
  STU_RS13685 (stu0873) glmS 795534..797342 (+) 1809 WP_011225869.1 glutamine--fructose-6-phosphate transaminase (isomerizing) -
  STU_RS13690 (stu0874) - 797460..797789 (+) 330 WP_011225870.1 zinc ribbon domain-containing protein YjdM -
  STU_RS13695 (stu0875) - 797983..798624 (+) 642 WP_011225871.1 amino acid ABC transporter permease -
  STU_RS13700 (stu0876) - 798633..799262 (+) 630 WP_011225872.1 amino acid ABC transporter ATP-binding protein -
  STU_RS13705 (stu0877) - 799275..800126 (+) 852 WP_011225873.1 amino acid ABC transporter substrate-binding protein -
  STU_RS13710 (stu0879) - 800292..801410 (+) 1119 Protein_764 DNA polymerase -
  STU_RS21080 - 801488..801785 (+) 298 Protein_765 hypothetical protein -
  STU_RS20545 - 801763..802044 (+) 282 Protein_766 DUF5960 family protein -
  STU_RS13730 (stu0882) adhP 802191..803214 (+) 1024 Protein_767 alcohol dehydrogenase AdhP -
  STU_RS13735 - 803654..803836 (-) 183 WP_041827015.1 hypothetical protein -
  STU_RS13740 (stu0884) - 803838..806624 (-) 2787 WP_011225878.1 DEAD/DEAH box helicase family protein -
  STU_RS13745 (stu0885) - 806626..808551 (-) 1926 WP_011225879.1 DNA methyltransferase -
  STU_RS13750 (stu0886) guaA 808774..810336 (-) 1563 WP_014727522.1 glutamine-hydrolyzing GMP synthase -
  STU_RS13755 (stu0887) - 810505..811203 (+) 699 WP_011225881.1 GntR family transcriptional regulator -
  STU_RS13760 (stu0888) - 811270..811602 (+) 333 WP_002950594.1 putative DNA-binding protein -
  STU_RS13765 (stu0889) ffh 811635..813197 (+) 1563 WP_011225882.1 signal recognition particle protein -
  STU_RS13770 (stu0890) - 813299..813826 (+) 528 WP_041828212.1 ECF transporter S component -
  STU_RS13775 (stu0891) - 813850..814365 (+) 516 WP_011225884.1 transcription repressor NadR -
  STU_RS13780 (stu0892) - 814460..815149 (+) 690 WP_011225885.1 XRE family transcriptional regulator -
  STU_RS13785 (stu0893) ylqF 815277..816131 (+) 855 WP_002950602.1 ribosome biogenesis GTPase YlqF -
  STU_RS13790 (stu0894) - 816118..816885 (+) 768 WP_041827018.1 ribonuclease HII -
  STU_RS13795 (stu0895) - 816896..817816 (+) 921 WP_002950604.1 ROK family protein -
  STU_RS13800 (stu0896) dprA 817884..818723 (+) 840 WP_011225887.1 DNA-processing protein DprA Machinery gene
  STU_RS13805 (stu0897) topA 818891..821035 (+) 2145 WP_011225888.1 type I DNA topoisomerase -
  STU_RS13820 (stu0900) - 822839..823663 (+) 825 WP_011225889.1 TraX family protein -
  STU_RS13825 (stu0901) - 823699..824358 (+) 660 WP_011225890.1 response regulator transcription factor -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  comX dprA positive effect
  comX ssbA positive effect
  comX comGE positive effect
  comX comGB positive effect
  comX comGD positive effect
  comX comGF positive effect
  comX comGG positive effect
  comX radA positive effect
  comX comEC positive effect
  comX comFC positive effect
  comX recA positive effect
  comX comEA positive effect
  comX comGC positive effect
  comX cinA positive effect
  comX coiA positive effect
  comX comGA positive effect
  comX comFA positive effect
  clpC comX negative effect
  comR comX positive effect
  comR comS positive effect
  comS comX positive effect
  comS comS positive effect
  amiC comS positive effect
  eeP comS positive effect
  amiD comS positive effect
  amiF comS positive effect
  amiA3 comS positive effect
  amiE comS positive effect
  clpP comX negative effect
  mecA comX negative effect

Sequence

Protein


Download         Length: 279 a.a.        Molecular weight: 31247.18 Da        Isoelectric Point: 8.6571

>NTDB_id=343 STU_RS13800 WP_011225887.1 817884..818723(+) (dprA) [Streptococcus thermophilus LMG 18311]
MNNFELFKLKAAGLTNLNILNILDYQKNQDKKLSLRDMAVVSKSKNAVLFMEKYKNLDVKQLKEDFQRFPTLSIFDKEYP
IELKHSYNPPVLLFYQGNIDLLSKPKLAVVGARKCSETGKQSVRKIVHELGNAFTIVSGLARGIDTCAHMEALKNKGNTI
AVIGTGLDVYYPKENKALQDYMAKNHLVLTEYGPGEQPLKYHYPERNRIISGLCQGVMVVEAKLRSGSLITCERAMEEGR
DVFAIPGNILDGKSDGCHHLIQEGAKCITTGFDIISEFS

Nucleotide


Download         Length: 840 bp        

>NTDB_id=343 STU_RS13800 WP_011225887.1 817884..818723(+) (dprA) [Streptococcus thermophilus LMG 18311]
ATGAATAACTTTGAACTTTTTAAACTAAAAGCTGCTGGATTGACGAATTTAAACATCCTTAACATTTTAGACTATCAAAA
AAATCAAGATAAAAAATTGAGCTTACGTGATATGGCAGTGGTATCTAAGTCTAAAAATGCCGTTCTCTTTATGGAAAAAT
ACAAGAATTTAGATGTTAAGCAGCTTAAGGAAGATTTTCAACGTTTTCCGACCTTATCAATTTTTGATAAGGAGTATCCC
ATTGAGCTGAAACATTCCTATAATCCTCCTGTCCTCCTCTTTTATCAAGGGAATATTGATTTGCTAAGTAAACCCAAGTT
AGCAGTAGTTGGTGCCAGAAAGTGTTCTGAAACAGGCAAACAGTCTGTTCGAAAAATTGTTCATGAACTTGGGAATGCTT
TTACTATTGTAAGTGGCTTGGCGCGTGGAATTGATACTTGTGCTCATATGGAGGCCTTAAAAAATAAAGGTAACACCATT
GCAGTTATCGGGACTGGGCTAGACGTATATTATCCTAAAGAAAACAAAGCTTTACAGGACTATATGGCTAAAAATCATTT
AGTTCTTACAGAATACGGACCGGGTGAACAGCCACTTAAATACCATTATCCTGAACGAAATCGGATAATTTCTGGATTGT
GTCAAGGGGTTATGGTGGTTGAAGCCAAGCTTCGCTCGGGAAGTCTTATTACTTGTGAGCGTGCAATGGAAGAAGGAAGA
GATGTTTTCGCCATACCAGGAAATATTTTAGATGGAAAATCGGATGGATGCCATCACCTCATTCAAGAGGGCGCAAAGTG
CATTACTACAGGATTTGACATCATTTCAGAATTTTCATAA

Domains

Predicted by InterproScan.

DNA recombination-mediator protein A (DNA_processg_A)

(71-269)

DNA processing protein A sterile alpha motif domain (SAM_DprA)

(1-62)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q5M4N4

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 Streptococcus mutans UA159

72.043

100

0.72
  dprA/cilB/dalA Streptococcus pneumoniae Rx1

63.309

99.642

0.631
  dprA/cilB/dalA Streptococcus pneumoniae D39

63.309

99.642

0.631
  dprA/cilB/dalA Streptococcus pneumoniae R6

63.309

99.642

0.631
  dprA/cilB/dalA Streptococcus pneumoniae TIGR4

63.309

99.642

0.631
  dprA/cilB/dalA Streptococcus mitis NCTC 12261

62.95

99.642

0.627
  dprA/cilB/dalA Streptococcus mitis SK321

62.95

99.642

0.627
  dprA Lactococcus lactis subsp. cremoris KW2

60.432

99.642

0.602
  dprA Latilactobacillus sakei subsp. sakei 23K

39.768

92.832

0.369
  dprA Bacillus subtilis subsp. subtilis str. 168

48.095

75.269

0.362

Multiple sequence alignment