Detailed information    

insolico Bioinformatically predicted

Overview

Name   comEC   Type   Machinery gene
Locus tag   JK088_RS04885 Genome accession   NZ_CP085857
Coordinates   1037718..1039976 (+) Length   752 a.a.
NCBI ID   WP_017448250.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain LH214     
Function   ssDNA transport through the inner membrane (predicted from homology)   
DNA binding and uptake

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 1035041..1059644 1037718..1039976 within 0


Gene organization within MGE regions


Location: 1035041..1059644
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JK088_RS04870 (JK088_04865) lolD 1035041..1035748 (+) 708 WP_005456257.1 lipoprotein-releasing ABC transporter ATP-binding protein LolD -
  JK088_RS04875 (JK088_04870) lolE 1035751..1036995 (+) 1245 WP_017448249.1 lipoprotein-releasing ABC transporter permease subunit LolE -
  JK088_RS04880 (JK088_04875) - 1037200..1037709 (-) 510 WP_005456245.1 DUF2062 domain-containing protein -
  JK088_RS04885 (JK088_04880) comEC 1037718..1039976 (+) 2259 WP_017448250.1 DNA internalization-related competence protein ComEC/Rec2 Machinery gene
  JK088_RS04890 (JK088_04885) msbA 1040008..1041756 (+) 1749 WP_017448251.1 lipid A ABC transporter ATP-binding protein/permease MsbA -
  JK088_RS04895 (JK088_04890) lpxK 1041762..1042769 (+) 1008 WP_017448252.1 tetraacyldisaccharide 4'-kinase -
  JK088_RS04900 (JK088_04895) - 1042750..1042929 (+) 180 WP_005378451.1 Trm112 family protein -
  JK088_RS04905 (JK088_04900) kdsB 1042929..1043684 (+) 756 WP_017448253.1 3-deoxy-manno-octulosonate cytidylyltransferase -
  JK088_RS04910 (JK088_04905) - 1043762..1045321 (-) 1560 WP_005456192.1 SpoVR family protein -
  JK088_RS04915 (JK088_04910) - 1045333..1046604 (-) 1272 WP_005481863.1 YeaH/YhbH family protein -
  JK088_RS04920 (JK088_04915) - 1046652..1048586 (-) 1935 WP_005456210.1 PrkA family serine protein kinase -
  JK088_RS04925 (JK088_04920) - 1049077..1049577 (-) 501 WP_017448255.1 YfbU family protein -
  JK088_RS04930 (JK088_04925) - 1049732..1050400 (-) 669 WP_017448256.1 energy-coupling factor ABC transporter permease -
  JK088_RS04935 (JK088_04930) pflA 1050561..1051301 (-) 741 WP_005456250.1 pyruvate formate lyase 1-activating protein -
  JK088_RS04940 (JK088_04935) - 1051448..1052425 (-) 978 WP_025983355.1 lipid A deacylase LpxR family protein -
  JK088_RS04945 (JK088_04940) pflB 1052578..1054854 (-) 2277 WP_005456189.1 formate C-acetyltransferase -
  JK088_RS04950 (JK088_04945) - 1055161..1056708 (-) 1548 WP_017448258.1 DUF3360 family protein -
  JK088_RS04955 (JK088_04950) - 1057165..1058631 (+) 1467 WP_005456213.1 hypothetical protein -
  JK088_RS04960 (JK088_04955) - 1058874..1059644 (+) 771 WP_005456207.1 ABC transporter ATP-binding protein -

Sequence

Protein


Download         Length: 752 a.a.        Molecular weight: 84637.08 Da        Isoelectric Point: 9.5185

>NTDB_id=620844 JK088_RS04885 WP_017448250.1 1037718..1039976(+) (comEC) [Vibrio parahaemolyticus strain LH214]
MTLLEKSWTLALFVASVISSAWWPTMPDWRWLLLGIITTGSIIKLRRGLISIGVIVGFMVVIVHGNIMEYQRQALFQAGE
NSTIIGRVDSSFTQISHGYEGVIAIKQVNSHTLLPFLKPKVRLITPFPLAVNSEFTTNVLIKPIIGLRNEAGFDAEKQSM
GSGVVARAVVTKDSHWVIRTSSSWRESIIQTVERDISRLEHFALIKALAFADRTGLTKEDWQSLRDSGLLHLVSISGLHI
GMALTFGLALGGLIRLVMPRYWFLPSVSGLAFAIVYAWLADFSLPTTRAVSVCIIYIALKYWLVHWSPWRVLLLAVALQL
FFQPFASFSLSFWLSYLSVGAVLFAVNTVQDSKEGRLGKLRILLLTQLILSLLIVPISGYFFSGFSWSSLVYNLVFIPWF
GFVVVPIMFAALIASLLFPMLATVLWYLLDIFLVPLSWSVRYAIGTWQPISAEWTFVIAVVSAVLVLRHVMPRYVWMFVC
VIVVVTGLFPKQDNQTWRIDVLDVGHGVAVLVEKEGRVLLYDTGKAWQNGSIAEQVITPVLHRRGYSSVDTMILSHADND
HAGGRKVIEQYFSPKHKLSSQSFLHYQPCIAAEKWKWQGLNMEVLWPPKPVVRAYNPHSCVISLEDPSSGFKMLFTGDIE
AISEWILLREPEKLRSDVMLVPHHGSKSSSNLKFINAVEPSLAIASTAKLNQWGMPAPEVVQAYTDSGVSWLDTGSDGQI
TILLDGNNWRFESKRRETIEPWYRQMLRNRVE

Nucleotide


Download         Length: 2259 bp        

>NTDB_id=620844 JK088_RS04885 WP_017448250.1 1037718..1039976(+) (comEC) [Vibrio parahaemolyticus strain LH214]
ATGACTCTCTTAGAAAAAAGTTGGACCTTGGCATTATTTGTCGCGAGCGTAATTTCGTCTGCATGGTGGCCGACGATGCC
GGATTGGCGTTGGTTGCTGCTGGGAATAATTACCACTGGCTCAATAATTAAATTACGTCGAGGCTTAATTAGCATAGGCG
TAATTGTGGGCTTTATGGTTGTCATCGTTCACGGCAATATTATGGAGTATCAGAGACAAGCCCTTTTTCAAGCAGGTGAG
AATAGTACCATAATTGGTAGAGTTGACAGCTCTTTTACGCAAATAAGTCACGGATATGAAGGTGTCATAGCGATAAAACA
AGTGAATTCTCACACTCTGTTACCTTTTCTTAAACCTAAAGTCCGCCTTATAACGCCATTCCCACTAGCTGTTAACAGTG
AGTTTACGACTAACGTTTTGATTAAGCCCATTATCGGCCTCAGAAATGAAGCGGGTTTCGACGCAGAAAAGCAGTCAATG
GGAAGTGGTGTTGTTGCTAGAGCGGTCGTAACTAAAGATTCACACTGGGTCATTCGTACTTCTTCGTCTTGGCGCGAGTC
GATAATTCAAACTGTTGAGCGTGATATTTCTCGCCTTGAGCACTTTGCTCTAATCAAAGCACTGGCTTTTGCTGATCGCA
CTGGGCTTACCAAAGAGGATTGGCAGTCTCTGCGTGACAGCGGATTACTGCATCTTGTATCGATTTCTGGTTTACACATT
GGGATGGCATTGACGTTTGGGCTCGCCCTTGGTGGGCTTATTCGGCTTGTTATGCCGCGATATTGGTTTCTACCATCAGT
GAGTGGGTTGGCGTTTGCCATTGTTTACGCTTGGCTTGCTGATTTTTCTTTGCCGACGACCCGAGCCGTTTCTGTTTGTA
TCATCTATATTGCTTTGAAGTATTGGCTTGTTCATTGGAGTCCATGGCGCGTACTGTTATTGGCTGTGGCGTTGCAACTT
TTCTTCCAACCTTTTGCTTCTTTTAGTTTGAGTTTTTGGCTGTCTTATTTATCCGTTGGTGCCGTTTTGTTTGCGGTTAA
CACAGTGCAAGACTCTAAGGAAGGTCGTTTGGGAAAGTTGCGGATACTTCTGTTGACTCAACTGATACTGAGCTTATTGA
TTGTCCCGATCAGTGGCTATTTTTTCTCTGGATTTAGCTGGTCTTCTTTAGTCTACAATTTGGTTTTCATTCCTTGGTTT
GGCTTTGTTGTCGTTCCAATCATGTTTGCTGCTTTAATTGCGTCATTGCTCTTTCCTATGTTGGCGACGGTTCTATGGTA
TTTGCTTGACATATTTCTGGTTCCACTAAGTTGGTCGGTTCGATATGCCATAGGGACTTGGCAACCCATTAGTGCCGAGT
GGACATTTGTTATTGCTGTAGTGAGTGCAGTGCTCGTTTTAAGACATGTTATGCCTCGTTACGTTTGGATGTTTGTCTGT
GTAATTGTTGTGGTGACAGGGTTGTTTCCTAAGCAAGATAACCAAACTTGGCGTATTGATGTGCTTGATGTCGGGCATGG
GGTGGCGGTGCTGGTCGAAAAAGAGGGGAGAGTTTTACTCTATGATACGGGCAAGGCTTGGCAAAACGGCAGTATAGCTG
AGCAAGTGATTACGCCAGTACTGCACCGCAGAGGTTACTCAAGTGTCGATACGATGATTTTAAGTCATGCCGATAATGAC
CATGCTGGCGGCCGAAAAGTGATAGAGCAGTACTTTTCACCTAAACACAAACTAAGCAGCCAGAGCTTTTTACATTATCA
GCCTTGTATTGCTGCTGAGAAATGGAAGTGGCAAGGGTTGAACATGGAGGTACTTTGGCCTCCTAAACCTGTTGTACGTG
CATACAACCCCCACTCTTGTGTCATCAGTCTGGAAGACCCTAGTTCAGGTTTTAAAATGTTGTTCACTGGTGATATCGAA
GCCATCAGCGAATGGATACTGCTTCGAGAGCCAGAAAAGCTGCGCAGTGATGTAATGCTAGTGCCGCATCATGGAAGCAA
AAGCTCTTCTAACCTTAAGTTTATCAATGCTGTTGAGCCTAGCTTGGCTATTGCTTCAACGGCAAAACTAAACCAGTGGG
GAATGCCCGCACCTGAAGTCGTTCAAGCTTATACCGACAGTGGTGTTAGTTGGTTAGACACTGGAAGTGATGGCCAAATA
ACAATCTTACTTGATGGCAATAACTGGCGTTTTGAAAGTAAACGTCGTGAGACAATTGAGCCTTGGTATAGGCAGATGCT
GCGTAACCGAGTAGAATAA

Domains

Predicted by InterproScan.

Metallo-beta-lactamase superfamily (Lactamase_B)

(504-679)

Competence protein (Competence)

(208-466)


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
  comEC Vibrio parahaemolyticus RIMD 2210633

98.537

100

0.985
  comEC Vibrio campbellii strain DS40M4

66.755

100

0.668
  comEC Vibrio cholerae strain A1552

41.036

100

0.411