Detailed information    

insolico Bioinformatically predicted

Overview

Name   recD   Type   Machinery gene
Locus tag   DV115_RS11215 Genome accession   NZ_CP031325
Coordinates   1981822..1983567 (-) Length   581 a.a.
NCBI ID   WP_003750390.1    Uniprot ID   -
Organism   Neisseria polysaccharea strain M18661     
Function   homologous recombination (predicted from homology)   
Homologous recombination

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 1977483..2024864 1981822..1983567 within 0


Gene organization within MGE regions


Location: 1977483..2024864
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DV115_RS11195 - 1977483..1977752 (-) 270 WP_003750397.1 HU family DNA-binding protein -
  DV115_RS11200 lon 1977934..1980396 (-) 2463 WP_003750395.1 endopeptidase La -
  DV115_RS11210 - 1980647..1981750 (+) 1104 WP_003750392.1 methyltransferase -
  DV115_RS11215 recD 1981822..1983567 (-) 1746 WP_003750390.1 exodeoxyribonuclease V subunit alpha Machinery gene
  DV115_RS11220 lolD 1983634..1984329 (-) 696 WP_025456651.1 lipoprotein-releasing ABC transporter ATP-binding protein LolD -
  DV115_RS11225 - 1984322..1985569 (-) 1248 WP_115437629.1 lipoprotein-releasing ABC transporter permease subunit -
  DV115_RS11230 - 1985774..1986052 (+) 279 WP_003709976.1 hypothetical protein -
  DV115_RS11235 recR 1986108..1986725 (-) 618 WP_025456650.1 recombination mediator RecR -
  DV115_RS11240 - 1986792..1988330 (-) 1539 WP_003750382.1 SurA N-terminal domain-containing protein -
  DV115_RS11245 - 1988417..1988770 (-) 354 WP_003750380.1 arsenate reductase -
  DV115_RS11250 - 1988919..1990547 (+) 1629 WP_002242611.1 ABC-F family ATPase -
  DV115_RS11255 - 1990632..1991885 (+) 1254 WP_003750374.1 multifunctional CCA addition/repair protein -
  DV115_RS11260 - 1992005..1992313 (+) 309 WP_003750373.1 hypothetical protein -
  DV115_RS11265 ruvB 1992385..1993416 (+) 1032 WP_003750371.1 Holliday junction branch migration DNA helicase RuvB -
  DV115_RS11705 - 1993420..1993593 (+) 174 WP_003750369.1 hypothetical protein -
  DV115_RS11270 - 1994043..1994240 (-) 198 WP_003750366.1 hypothetical protein -
  DV115_RS11285 - 1995096..1995773 (+) 678 WP_003750363.1 hypothetical protein -
  DV115_RS11290 ribA 1995766..1996359 (+) 594 WP_025456648.1 GTP cyclohydrolase II -
  DV115_RS11295 - 1996575..1997402 (-) 828 WP_003750358.1 hypothetical protein -
  DV115_RS11305 - 1997721..1998215 (-) 495 WP_003750356.1 hypothetical protein -
  DV115_RS11310 - 1998212..1998988 (-) 777 WP_003750354.1 DUF4376 domain-containing protein -
  DV115_RS12285 - 1999010..1999567 (-) 558 WP_308075391.1 phage tail protein -
  DV115_RS12290 - 1999702..1999939 (-) 238 Protein_1951 phage tail protein -
  DV115_RS11320 - 1999950..2000510 (-) 561 WP_003750352.1 YmfQ family protein -
  DV115_RS11325 - 2000507..2001562 (-) 1056 WP_042742362.1 baseplate J/gp47 family protein -
  DV115_RS11330 - 2001576..2001923 (-) 348 WP_003750349.1 phage GP46 family protein -
  DV115_RS11335 - 2002035..2002697 (-) 663 WP_003750348.1 phage baseplate assembly protein V -
  DV115_RS11340 - 2002694..2003839 (-) 1146 WP_003750347.1 phage baseplate assembly protein -
  DV115_RS11345 - 2003829..2005160 (-) 1332 WP_003750346.1 DNA circularization protein -
  DV115_RS11350 - 2005160..2007325 (-) 2166 WP_003750345.1 phage tail tape measure protein -
  DV115_RS11710 - 2007403..2007618 (-) 216 WP_003750344.1 hypothetical protein -
  DV115_RS12160 - 2007622..2008251 (-) 630 WP_301005481.1 helix-turn-helix domain-containing protein -
  DV115_RS11715 - 2008404..2008658 (-) 255 WP_155811398.1 hypothetical protein -
  DV115_RS11370 - 2009112..2009537 (-) 426 WP_003750338.1 hypothetical protein -
  DV115_RS11375 - 2009544..2009921 (-) 378 WP_003750337.1 hypothetical protein -
  DV115_RS11380 - 2009986..2011395 (-) 1410 WP_025456646.1 phage tail sheath subtilisin-like domain-containing protein -
  DV115_RS11385 - 2011398..2011595 (-) 198 WP_002225238.1 DUF2635 domain-containing protein -
  DV115_RS11390 - 2011592..2012242 (-) 651 WP_002229450.1 DUF1834 family protein -
  DV115_RS11395 - 2012232..2012654 (-) 423 WP_003750335.1 gp436 family protein -
  DV115_RS11400 - 2012654..2013043 (-) 390 WP_115437630.1 hypothetical protein -
  DV115_RS11405 - 2013108..2014016 (-) 909 WP_003750332.1 Mu-like prophage major head subunit gpT family protein -
  DV115_RS11410 - 2014016..2015077 (-) 1062 WP_025456645.1 phage protease -
  DV115_RS11415 - 2015308..2015724 (-) 417 WP_115437631.1 phage virion morphogenesis protein -
  DV115_RS11420 - 2015834..2017129 (-) 1296 WP_003751150.1 phage head morphogenesis protein -
  DV115_RS11425 - 2017116..2018684 (-) 1569 WP_025456718.1 DUF935 domain-containing protein -
  DV115_RS11430 terL 2018684..2020306 (-) 1623 WP_003751157.1 phage terminase large subunit -
  DV115_RS11435 - 2020318..2020512 (+) 195 WP_003751159.1 hypothetical protein -
  DV115_RS11440 - 2020520..2021026 (-) 507 WP_004520456.1 DUF1804 family protein -
  DV115_RS11445 - 2021029..2021226 (-) 198 WP_002219313.1 hypothetical protein -
  DV115_RS11450 - 2021223..2021489 (-) 267 WP_003751165.1 hypothetical protein -
  DV115_RS11455 - 2021501..2021842 (-) 342 WP_003751166.1 hypothetical protein -
  DV115_RS12295 - 2021839..2022156 (-) 318 WP_176608566.1 hypothetical protein -
  DV115_RS11465 - 2022053..2022472 (-) 420 WP_115437632.1 hypothetical protein -
  DV115_RS11470 - 2022444..2022680 (-) 237 WP_002219316.1 hypothetical protein -
  DV115_RS11795 - 2022683..2022847 (-) 165 WP_003751173.1 hypothetical protein -
  DV115_RS11480 - 2022850..2023056 (-) 207 WP_002219372.1 hypothetical protein -
  DV115_RS11485 - 2023053..2023598 (-) 546 WP_003751174.1 N-acetylmuramoyl-L-alanine amidase -
  DV115_RS11490 - 2023742..2024422 (-) 681 WP_003751179.1 hypothetical protein -
  DV115_RS11495 - 2024424..2024864 (-) 441 WP_003751181.1 Mor transcription activator family protein -

Sequence

Protein


Download         Length: 581 a.a.        Molecular weight: 63410.05 Da        Isoelectric Point: 5.7538

>NTDB_id=305666 DV115_RS11215 WP_003750390.1 1981822..1983567(-) (recD) [Neisseria polysaccharea strain M18661]
MERQTDEFAQAAARAAIRFLERYADSGNEVLANCTERLFQALQNGHSFIRLSGGEADTLPAVAPVVGTSAAPLILEGRRL
FLGRMWQLEYDLAKEIRRLSAADITLPNPYHASKNLTAWFQGEGSVGQRDAAALALLQSFMVITGGPGTGKTTTVAKLLA
LICDEDENLPNIALAAPTGKAAAHMARALHRAINGFDAPEAVRRHLLKLEGQTVHRLLKLRPPKMQAAFNPVYPLPFDVL
VIDEASMLDTALMLQLLKAVKTGARVILLGDENQLPSVGVGAVLSVLSQKTVLDGETHQRLAGFLQEHGFSVSANPPVLA
QNTAHLSFSHRFGDNSGIGCLARAAVSGDEGAWALFDRFPDELEHSECSPNARVERLYRAHKAYWQAVKDGNIEAAYAGI
SDIVVLAAWRQDAEDFNEAYCSHVRRKMNIPEHQAYFAGEPIMIRQNDYALELFNGDIGLIMEDVGRQGSLAAYFADADG
FKKVAVSCLPEFEPTFAMTVHKSQGSEYREVWLLPPSAAPSDEGDDALSGLSKELLYTAITRAREKFVFFGGEEAFRQAA
ATVKTRQTALGSMLERVFSQE

Nucleotide


Download         Length: 1746 bp        

>NTDB_id=305666 DV115_RS11215 WP_003750390.1 1981822..1983567(-) (recD) [Neisseria polysaccharea strain M18661]
ATGGAACGGCAGACAGATGAATTTGCCCAAGCGGCGGCAAGGGCGGCAATCCGTTTTTTGGAACGCTATGCGGATTCAGG
CAACGAAGTGCTTGCAAACTGCACCGAACGCCTGTTTCAGGCATTGCAAAACGGTCATTCGTTTATCCGTTTGAGCGGTG
GCGAGGCTGACACGCTGCCGGCAGTCGCACCCGTGGTCGGAACATCCGCCGCGCCTTTGATTTTGGAAGGCAGAAGGCTG
TTTTTGGGCAGGATGTGGCAGTTGGAATACGATTTGGCAAAGGAAATCCGACGGCTCTCTGCCGCAGACATTACGCTCCC
GAATCCGTATCACGCATCAAAAAATCTGACTGCATGGTTTCAGGGGGAAGGAAGTGTAGGACAGCGCGATGCGGCTGCCC
TAGCATTGCTGCAGTCTTTTATGGTGATTACCGGCGGACCCGGGACGGGTAAAACGACAACGGTTGCCAAACTGCTGGCG
CTGATTTGCGATGAAGACGAAAATCTTCCCAACATCGCGCTTGCCGCACCGACAGGCAAAGCGGCGGCACATATGGCGCG
CGCGCTGCACCGTGCAATCAACGGTTTTGACGCGCCGGAGGCCGTCCGCCGCCATTTGCTCAAACTGGAAGGGCAAACCG
TCCACCGACTGCTGAAGCTGCGCCCGCCCAAAATGCAGGCGGCGTTCAACCCTGTTTACCCGCTGCCGTTTGACGTATTG
GTTATCGATGAAGCCTCTATGCTGGATACGGCATTGATGTTGCAACTTTTAAAAGCGGTCAAAACCGGCGCGCGCGTGAT
TCTGCTGGGGGATGAAAACCAGCTCCCGTCCGTCGGAGTCGGGGCGGTGCTGTCCGTTTTGTCACAAAAAACCGTTTTGG
ACGGAGAAACGCACCAAAGGCTGGCCGGCTTCCTTCAGGAACACGGTTTCAGCGTCAGCGCAAATCCGCCCGTGTTGGCG
CAAAACACCGCCCATCTGTCGTTCAGCCACCGTTTCGGCGACAACAGCGGCATCGGCTGCCTTGCCCGTGCCGCCGTATC
GGGCGATGAGGGGGCGTGGGCATTGTTTGACCGGTTTCCGGATGAACTGGAACATTCGGAATGCAGTCCGAACGCTCGAG
TCGAAAGGTTGTACCGGGCGCACAAAGCCTATTGGCAGGCGGTAAAAGACGGCAATATCGAAGCCGCATACGCAGGCATC
TCGGATATCGTGGTCCTGGCAGCTTGGCGGCAGGATGCGGAAGACTTCAACGAAGCCTATTGCAGCCATGTACGCCGCAA
AATGAACATACCGGAACATCAGGCCTATTTCGCCGGAGAACCGATTATGATCAGACAGAACGACTACGCGCTTGAACTGT
TCAACGGCGACATCGGACTGATTATGGAAGATGTCGGACGGCAGGGCAGCCTTGCCGCCTATTTTGCCGATGCGGACGGA
TTTAAAAAGGTAGCGGTAAGCTGCCTGCCCGAATTTGAACCCACATTCGCCATGACCGTCCACAAAAGCCAAGGTTCGGA
ATATCGGGAAGTCTGGCTGCTGCCGCCTTCCGCCGCACCTTCGGACGAAGGGGACGATGCATTGTCCGGATTGAGTAAGG
AGTTGTTATATACCGCCATTACCCGCGCGAGAGAGAAGTTCGTATTCTTCGGCGGGGAAGAAGCCTTCCGGCAAGCTGCC
GCCACCGTCAAAACGCGTCAGACGGCATTGGGCAGTATGCTCGAGCGGGTATTTTCACAAGAATAA

Domains

Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(496-548)

AAA domain (AAA_30)

(125-290)


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
  recD Neisseria gonorrhoeae strain FA1090

91.738

100

0.917

Multiple sequence alignment