Detailed information    

insolico Bioinformatically predicted

Overview


Name   recD2   Type   Machinery gene
Locus tag   JZ805_RS08020 Genome accession   NZ_CP071154
Coordinates   1592714..1595110 (-) Length   798 a.a.
NCBI ID   WP_003727413.1    Uniprot ID   A0A0B8QZ80
Organism   Listeria monocytogenes strain LR8     
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)
ICE 1595063..1674364 1592714..1595110 flank -47


Gene organization within MGE regions


Location: 1592714..1674364
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JZ805_RS08020 recD2 1592714..1595110 (-) 2397 WP_003727413.1 ATP-dependent RecD-like DNA helicase Machinery gene
  JZ805_RS08025 - 1595138..1595776 (-) 639 WP_072572675.1 tetratricopeptide repeat protein -
  JZ805_RS08030 - 1595817..1596557 (-) 741 WP_003725985.1 alpha/beta hydrolase -
  JZ805_RS08035 mnmA 1596676..1597791 (-) 1116 WP_003727410.1 tRNA 2-thiouridine(34) synthase MnmA -
  JZ805_RS08040 - 1597810..1598958 (-) 1149 WP_003731166.1 cysteine desulfurase family protein -
  JZ805_RS08050 - 1599339..1600622 (-) 1284 WP_003726725.1 replication-associated recombination protein A -
  JZ805_RS08055 - 1600771..1601193 (+) 423 WP_003726726.1 Rrf2 family transcriptional regulator -
  JZ805_RS08060 - 1601438..1602643 (+) 1206 WP_003727405.1 ammonium transporter -
  JZ805_RS08065 - 1602657..1603022 (+) 366 WP_003723521.1 P-II family nitrogen regulator -
  JZ805_RS08070 - 1603172..1603552 (+) 381 WP_003727404.1 hypothetical protein -
  JZ805_RS08075 aspS 1603592..1605367 (-) 1776 WP_010958907.1 aspartate--tRNA ligase -
  JZ805_RS08080 hisS 1605369..1606646 (-) 1278 WP_003726853.1 histidine--tRNA ligase -
  JZ805_RS08085 - 1607097..1608380 (+) 1284 WP_003726769.1 N-acetylmuramoyl-L-alanine amidase -
  JZ805_RS08090 dtd 1608418..1608870 (-) 453 WP_003731162.1 D-aminoacyl-tRNA deacylase -
  JZ805_RS08095 - 1608886..1611102 (-) 2217 WP_003727400.1 bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase -
  JZ805_RS08100 - 1611308..1611829 (-) 522 WP_003727399.1 adenine phosphoribosyltransferase -
  JZ805_RS08105 recJ 1611819..1614170 (-) 2352 WP_010958908.1 single-stranded-DNA-specific exonuclease RecJ -
  JZ805_RS08110 - 1614275..1614619 (-) 345 WP_003726593.1 lipopolysaccharide assembly protein LapA domain-containing protein -
  JZ805_RS08115 secDF 1614717..1616981 (-) 2265 WP_003734333.1 protein translocase subunit SecDF -
  JZ805_RS08120 - 1617082..1617372 (-) 291 WP_003726595.1 post-transcriptional regulator -
  JZ805_RS08125 - 1617800..1618114 (+) 315 WP_000420682.1 YdcP family protein -
  JZ805_RS08130 - 1618130..1618516 (+) 387 WP_000985015.1 YdcP family protein -
  JZ805_RS08135 - 1618545..1619930 (+) 1386 WP_000813488.1 FtsK/SpoIIIE domain-containing protein -
  JZ805_RS08140 - 1619933..1620085 (+) 153 WP_000879507.1 hypothetical protein -
  JZ805_RS08145 mobT 1620108..1621313 (+) 1206 WP_000398284.1 MobT family relaxase -
  JZ805_RS08150 - 1621356..1621577 (+) 222 WP_001009056.1 hypothetical protein -
  JZ805_RS08155 - 1621694..1622191 (+) 498 WP_000342539.1 antirestriction protein ArdA -
  JZ805_RS08160 - 1622280..1622672 (+) 393 WP_000723888.1 conjugal transfer protein -
  JZ805_RS08165 - 1622656..1625103 (+) 2448 WP_000331160.1 ATP-binding protein -
  JZ805_RS08170 - 1625106..1627283 (+) 2178 WP_000804748.1 membrane protein -
  JZ805_RS08175 - 1627280..1628281 (+) 1002 WP_000769868.1 bifunctional lysozyme/C40 family peptidase -
  JZ805_RS08180 - 1628278..1629210 (+) 933 WP_001224318.1 conjugal transfer protein -
  JZ805_RS08185 - 1629455..1629571 (+) 117 WP_001814923.1 tetracycline resistance determinant leader peptide -
  JZ805_RS08190 tet(M) 1629587..1631506 (+) 1920 WP_211088416.1 tetracycline resistance ribosomal protection protein Tet(M) -
  JZ805_RS08195 - 1631625..1631792 (+) 168 WP_000336323.1 cysteine-rich KTR domain-containing protein -
  JZ805_RS08200 - 1631852..1632205 (-) 354 WP_001227347.1 helix-turn-helix transcriptional regulator -
  JZ805_RS08205 - 1632710..1633132 (+) 423 WP_000804885.1 sigma-70 family RNA polymerase sigma factor -
  JZ805_RS08210 - 1633129..1633359 (+) 231 WP_000857133.1 helix-turn-helix domain-containing protein -
  JZ805_RS15020 - 1633585..1633836 (-) 252 WP_001845478.1 hypothetical protein -
  JZ805_RS08215 - 1633820..1634023 (+) 204 WP_000814511.1 excisionase -
  JZ805_RS08220 - 1634105..1635322 (+) 1218 WP_001291561.1 tyrosine-type recombinase/integrase -
  JZ805_RS08225 yajC 1635554..1635883 (-) 330 WP_003723533.1 preprotein translocase subunit YajC -
  JZ805_RS08230 tgt 1635917..1637056 (-) 1140 WP_003723534.1 tRNA guanosine(34) transglycosylase Tgt -
  JZ805_RS08235 queA 1637143..1638171 (-) 1029 WP_010958909.1 tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA -
  JZ805_RS08240 ruvB 1638175..1639182 (-) 1008 WP_003727396.1 Holliday junction branch migration DNA helicase RuvB -
  JZ805_RS08245 ruvA 1639198..1639803 (-) 606 WP_003726644.1 Holliday junction branch migration protein RuvA -
  JZ805_RS08250 - 1639927..1640862 (-) 936 WP_003726645.1 L-lactate dehydrogenase -
  JZ805_RS08255 - 1640932..1641657 (-) 726 WP_003726646.1 YebC/PmpR family DNA-binding transcriptional regulator -
  JZ805_RS08260 pheA 1641768..1642616 (-) 849 WP_003726647.1 prephenate dehydratase -
  JZ805_RS08265 obgE 1642683..1643972 (-) 1290 WP_003724114.1 GTPase ObgE -
  JZ805_RS08270 glpK 1644131..1645624 (-) 1494 WP_003726648.1 glycerol kinase GlpK -
  JZ805_RS08275 - 1645699..1646517 (-) 819 WP_003727395.1 MIP/aquaporin family protein -
  JZ805_RS08280 rpmA 1646883..1647173 (-) 291 WP_003726866.1 50S ribosomal protein L27 -
  JZ805_RS08285 - 1647187..1647504 (-) 318 WP_003726867.1 ribosomal-processing cysteine protease Prp -
  JZ805_RS08290 rplU 1647523..1647831 (-) 309 WP_003726868.1 50S ribosomal protein L21 -
  JZ805_RS08295 - 1647988..1649349 (-) 1362 WP_003727394.1 ribonuclease E/G -
  JZ805_RS08300 minD 1649402..1650202 (-) 801 WP_003723226.1 septum site-determining protein MinD -
  JZ805_RS08305 minC 1650205..1650882 (-) 678 WP_003725673.1 septum site-determining protein MinC -
  JZ805_RS08310 mreD 1651060..1651578 (-) 519 WP_003723228.1 rod shape-determining protein MreD -
  JZ805_RS08315 mreC 1651581..1652468 (-) 888 WP_003725674.1 rod shape-determining protein MreC -
  JZ805_RS08320 - 1652554..1653567 (-) 1014 WP_003727393.1 rod shape-determining protein -
  JZ805_RS08325 radC 1654019..1654693 (-) 675 WP_003725676.1 DNA repair protein RadC -
  JZ805_RS08330 - 1654705..1655415 (-) 711 WP_003725677.1 A24 family peptidase -
  JZ805_RS08335 - 1655627..1656916 (-) 1290 WP_003725678.1 folylpolyglutamate synthase/dihydrofolate synthase family protein -
  JZ805_RS08340 - 1656978..1659629 (-) 2652 WP_003725679.1 valine--tRNA ligase -
  JZ805_RS08345 hemL 1659953..1661242 (-) 1290 WP_003725680.1 glutamate-1-semialdehyde 2,1-aminomutase -
  JZ805_RS08350 hemB 1661255..1662229 (-) 975 WP_003725681.1 porphobilinogen synthase -
  JZ805_RS08355 - 1662226..1662948 (-) 723 WP_003727391.1 uroporphyrinogen-III synthase -
  JZ805_RS08360 hemC 1662945..1663874 (-) 930 WP_003725683.1 hydroxymethylbilane synthase -
  JZ805_RS08365 hemA 1663878..1665185 (-) 1308 WP_003727390.1 glutamyl-tRNA reductase -
  JZ805_RS08370 yihA 1665313..1665897 (-) 585 WP_003723242.1 ribosome biogenesis GTP-binding protein YihA/YsxC -
  JZ805_RS08375 thrS 1666005..1667927 (-) 1923 WP_003725686.1 threonine--tRNA ligase -
  JZ805_RS08380 dnaI 1668277..1669200 (-) 924 WP_003732568.1 primosomal protein DnaI -
  JZ805_RS08385 - 1669210..1670586 (-) 1377 WP_003741050.1 replication initiation and membrane attachment family protein -
  JZ805_RS08390 nrdR 1670592..1671056 (-) 465 WP_003723246.1 transcriptional regulator NrdR -
  JZ805_RS08395 coaE 1671134..1671736 (-) 603 WP_003725689.1 dephospho-CoA kinase -
  JZ805_RS08400 mutM 1671753..1672574 (-) 822 WP_003725690.1 DNA-formamidopyrimidine glycosylase -

Sequence


Protein


Download         Length: 798 a.a.        Molecular weight: 90103.20 Da        Isoelectric Point: 4.8081

>NTDB_id=543315 JZ805_RS08020 WP_003727413.1 1592714..1595110(-) (recD2) [Listeria monocytogenes strain LR8]
MAEQESLALFNDTPEELFMKGTMLSTIFYNAENLFSVVRILVKETNADWDEKDIIVTGFFPALHEQEVYTFYGKMQEHAK
FGQQFKADRFRKEMPQSRAGLINYLSGELFKGIGKVTAENIVDTIGDDAITKILSDPSLLNTVPKLPSGAAESLLASLRE
NQGLEHVMVGLNEYGFGPQLSMKIFQAYKQNAIEVLENNPYKLIEDIKGIGFQRADELGRKLGLGGNHPERLRAGILFML
DSVCMQQGHVYMEQEVLLGEVTYLLEESEGIRIDQNILVAQVEKLAEEQKIITENTRVYMPSLYYSESGFAYHVKRMLKQ
TEYQEQFPQSEFLLALGELEERIGVHYGDSQRQALEQALMSPMLVLTGGPGTGKTTVIKGIVELYAELNGVSLDPHAYKD
GATFPVLLAAPTGRAAKRMSESTGLPAMTIHRLLGMNGQEQMDDDAERLIDGRLLIVDEMSMVDIWLANQLFRALPAHMQ
VVLVGDQDQLPSVGPGQVLKDILQSEQIPTVALSDIYRQKDGSSIIEMAHYIKEGMLPADFTKNSADRSFFHCTVNQIGD
VVEQVVKNAKNKGFRAKDIQVLAPMYRGPAGIDILNKKLQEIFNPNDTGRRKEVQFGDIKYRVHDKVLQLINQPEKNVFN
GDIGEIVSIIYAKENTEKQDLIVVQFDQTEVSYYRQEFNQLTHAYCCSIHKAQGSEFPIVIMPIVRSYYRMLRRDLLYTG
VTRSKQFLILCGEEEAFRMGIERIDENKRNTTLSERLMSEDVLLEQMTNKRILTAENITEIDPMIGMEGITPEQFMAG

Nucleotide


Download         Length: 2397 bp        

>NTDB_id=543315 JZ805_RS08020 WP_003727413.1 1592714..1595110(-) (recD2) [Listeria monocytogenes strain LR8]
ATGGCTGAACAAGAATCACTCGCTCTATTTAACGATACACCAGAAGAACTTTTCATGAAGGGCACGATGTTGTCCACCAT
TTTTTACAATGCCGAAAACCTCTTTTCTGTTGTACGAATATTGGTCAAAGAAACCAATGCGGATTGGGACGAAAAAGATA
TTATCGTAACCGGTTTTTTCCCAGCGCTTCACGAGCAAGAAGTATACACTTTCTACGGGAAAATGCAGGAACATGCTAAA
TTTGGTCAACAGTTTAAAGCAGACCGGTTTCGTAAGGAAATGCCACAATCACGAGCGGGCTTAATTAATTATCTATCCGG
TGAACTTTTTAAAGGCATTGGTAAAGTCACTGCTGAAAATATTGTGGATACGATTGGCGACGATGCTATCACAAAAATTT
TATCCGATCCGAGCTTGCTAAATACAGTACCTAAGTTGCCATCTGGCGCGGCAGAAAGTTTGCTTGCTTCCCTTAGAGAA
AATCAAGGGTTGGAGCATGTGATGGTCGGATTAAACGAATATGGCTTTGGTCCGCAATTATCCATGAAAATTTTCCAGGC
CTATAAACAAAATGCGATTGAAGTGTTAGAGAATAATCCTTATAAATTGATTGAGGATATAAAAGGGATTGGTTTTCAGC
GTGCCGATGAGCTTGGACGGAAACTCGGTCTTGGCGGGAATCATCCAGAACGGCTTCGTGCTGGGATTTTATTTATGTTA
GATTCGGTTTGTATGCAACAAGGTCATGTATATATGGAGCAAGAGGTTCTGCTCGGAGAAGTAACTTATTTACTGGAAGA
AAGCGAAGGCATTCGTATTGACCAAAATATTTTAGTAGCTCAAGTAGAAAAATTAGCTGAGGAACAAAAGATTATTACGG
AAAATACACGTGTTTACATGCCATCACTCTATTATTCAGAGAGCGGCTTTGCATATCACGTGAAGCGAATGCTTAAACAA
ACAGAATACCAAGAACAATTTCCGCAATCCGAATTTCTGCTAGCTCTAGGAGAATTAGAAGAACGGATTGGCGTTCACTA
CGGAGATTCGCAGCGACAGGCTTTAGAACAAGCTTTAATGTCTCCGATGCTCGTACTTACTGGTGGTCCCGGGACAGGGA
AAACAACAGTCATTAAAGGGATAGTGGAGCTTTATGCGGAACTAAATGGTGTGAGCCTTGATCCCCATGCTTACAAAGAT
GGAGCGACTTTCCCCGTTCTTCTTGCTGCTCCAACTGGCCGTGCCGCTAAACGGATGTCTGAGTCAACAGGGCTTCCTGC
GATGACCATTCACCGTTTACTTGGAATGAATGGTCAAGAACAAATGGATGATGATGCAGAAAGACTGATTGATGGACGAC
TGTTGATAGTGGATGAGATGTCAATGGTAGATATTTGGCTTGCTAATCAATTATTCCGTGCTTTACCAGCGCACATGCAA
GTGGTACTTGTTGGCGACCAAGATCAGTTGCCTTCAGTCGGACCAGGTCAAGTACTCAAAGATATTCTGCAATCTGAACA
AATTCCAACTGTAGCTCTTTCAGATATTTACCGCCAAAAGGATGGTTCTTCCATTATCGAAATGGCGCATTATATAAAAG
AAGGCATGTTGCCAGCTGATTTCACCAAAAATAGCGCCGATCGCTCCTTTTTTCATTGCACGGTAAATCAAATTGGTGAT
GTAGTCGAACAAGTGGTAAAAAATGCAAAAAACAAAGGATTTCGAGCAAAAGACATCCAAGTTTTAGCACCAATGTATCG
TGGTCCTGCAGGCATTGATATTTTAAATAAAAAACTACAAGAAATTTTCAATCCAAATGATACAGGGCGTCGTAAAGAAG
TTCAATTTGGTGACATAAAGTATCGCGTGCATGACAAAGTACTGCAATTGATTAATCAACCAGAGAAAAATGTGTTTAAC
GGTGATATTGGTGAAATTGTGTCTATTATATACGCCAAAGAAAATACCGAAAAACAAGATCTGATTGTCGTTCAATTTGA
CCAAACAGAGGTTTCTTACTATAGGCAAGAATTTAATCAATTGACCCATGCTTATTGTTGTTCGATCCATAAAGCGCAGG
GAAGTGAATTTCCGATTGTGATTATGCCGATTGTCCGCAGTTACTACCGGATGTTACGGCGCGATTTATTATACACCGGA
GTAACGCGAAGTAAACAATTTCTCATTCTTTGCGGGGAAGAAGAAGCTTTTCGAATGGGGATAGAACGAATTGATGAAAA
TAAACGTAATACAACACTCTCTGAACGTTTAATGAGCGAAGATGTTTTATTAGAACAAATGACAAATAAACGAATTCTCA
CAGCTGAAAATATTACGGAAATTGATCCGATGATTGGAATGGAAGGGATTACTCCAGAACAATTTATGGCAGGATAA


Secondary structure


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



3D structure


Source ID Structure
  AlphaFold DB A0A0B8QZ80

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
  recD2 Bacillus subtilis subsp. subtilis str. 168

57.234

98.747

0.565