Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HV822_RS04555 Genome accession   NZ_CP079801
Coordinates   983848..985548 (+) Length   566 a.a.
NCBI ID   WP_238873536.1    Uniprot ID   -
Organism   Halopseudomonas maritima strain RR6     
Function   power the assembly of type IV pilus (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)
Genomic island 977085..986811 983848..985548 within 0


Gene organization within MGE regions


Location: 977085..986811
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HV822_RS04520 (HV822_04525) - 977085..978083 (-) 999 WP_238872577.1 alpha-2,8-polysialyltransferase family protein -
  HV822_RS04525 (HV822_04530) - 978099..979397 (-) 1299 WP_238872578.1 lipopolysaccharide biosynthesis protein -
  HV822_RS04530 (HV822_04535) - 979372..980313 (-) 942 WP_238872579.1 glycosyltransferase family 2 protein -
  HV822_RS04535 (HV822_04540) - 980329..981177 (-) 849 WP_238872580.1 glycosyltransferase family 2 protein -
  HV822_RS04540 (HV822_04545) - 981174..983093 (-) 1920 WP_238872581.1 hypothetical protein -
  HV822_RS18150 (HV822_04550) - 983168..983578 (-) 411 WP_275419408.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  HV822_RS04555 (HV822_04555) pilB 983848..985548 (+) 1701 WP_238873536.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HV822_RS04560 (HV822_04560) pilC 985552..986811 (+) 1260 WP_238872582.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62292.30 Da        Isoelectric Point: 5.3410

>NTDB_id=589552 HV822_RS04555 WP_238873536.1 983848..985548(+) (pilB) [Halopseudomonas maritima strain RR6]
METPALSGLARRIVHEGILTAEVASKASQQAAQDKIPFITHLVQRNLANSKSLAMVCADEFGYPFFDLTALDKEAQPKEL
VSEKLVRQHNVMPLFKRGSRLYLAISDPTNQQALSDIQFNTGLMTDAVIVEDDKLHGAIEKYLDSPTGGLGDIADAELDD
LDVQAVKDDDKPDGGSEADDAPIVRFVNKMLLDAVRMGSSDLHFEPYEKAYRVRFRTDGVLHEVAKPPQQLGVRIAARLK
VMSSMDLAERRKPQDGRIKLKISKNKAIDFRVNTLPTLWGEKVVLRILDSDSAKMGIDALGYEDDQKEMYLAALARPQGM
ILVTGPTGSGKTVSLYTGLNILNTDERNISTAEDPVEINLEGINQVNVNPKQGLDFAQALRAFLRQDPDIIMVGEIRDLE
TAEIAIKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPSFNIATSVNLIIAQRLARRLCKTCKTKMEVPRETLLEEGFSAE
KIDAGITIYGPVGCENCKDGYKGRVGIYEVVKITPAMQRIIMEDGNSIQISDVAQSEGFRNLRQSALLKVQEGVTSLAEV
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=589552 HV822_RS04555 WP_238873536.1 983848..985548(+) (pilB) [Halopseudomonas maritima strain RR6]
ATGGAAACACCTGCTCTGTCCGGGCTAGCTCGTCGCATCGTGCATGAAGGCATTCTAACCGCCGAGGTCGCCTCCAAGGC
TTCACAGCAAGCGGCTCAAGACAAAATCCCCTTTATCACCCACTTGGTGCAACGAAATCTAGCGAACTCCAAATCACTGG
CCATGGTGTGCGCGGACGAGTTCGGCTATCCCTTTTTCGACTTGACAGCACTGGACAAGGAAGCTCAGCCCAAGGAGCTA
GTCAGCGAAAAGCTAGTTCGGCAGCACAATGTCATGCCGTTGTTCAAAAGGGGGTCACGGCTGTACCTTGCCATCTCGGA
CCCCACTAACCAGCAGGCGCTTAGCGATATTCAATTCAACACCGGCTTAATGACAGATGCCGTGATCGTGGAAGACGATA
AGCTACACGGCGCGATCGAAAAATATCTGGATAGCCCTACCGGCGGCCTGGGAGACATTGCCGACGCAGAGCTGGACGAT
CTGGACGTTCAGGCAGTCAAAGACGACGACAAGCCCGATGGTGGTTCAGAGGCCGACGATGCCCCCATAGTGCGCTTTGT
TAATAAAATGCTGCTCGACGCAGTCCGCATGGGGTCATCAGACCTGCACTTCGAGCCATATGAGAAAGCGTACCGGGTGC
GCTTTCGCACTGACGGGGTCTTGCATGAGGTTGCCAAGCCCCCTCAGCAACTTGGCGTGCGCATTGCTGCGCGCCTGAAA
GTAATGTCGTCAATGGACCTTGCCGAGCGCCGCAAGCCTCAAGATGGGCGGATCAAGCTAAAAATATCAAAAAACAAAGC
CATCGACTTCCGGGTGAACACCCTGCCAACGCTTTGGGGTGAGAAAGTGGTGCTGCGGATACTCGACTCTGACAGCGCCA
AGATGGGCATTGACGCTTTGGGCTACGAAGACGATCAGAAAGAGATGTACTTGGCAGCTCTTGCCCGCCCTCAAGGCATG
ATTCTGGTGACAGGCCCAACGGGCTCTGGCAAGACCGTCTCCCTGTACACCGGTCTGAATATACTAAACACCGATGAACG
CAACATCTCCACTGCAGAGGATCCCGTCGAGATTAACCTCGAAGGCATCAACCAAGTCAACGTCAACCCCAAGCAGGGAC
TGGATTTCGCCCAAGCACTGCGCGCCTTCCTGCGCCAGGACCCAGACATCATCATGGTGGGCGAGATTCGAGACTTGGAA
ACCGCCGAGATTGCGATTAAAGCCGCACAGACAGGCCACATGGTCATGTCAACCTTGCACACTAATAGCGCTGCTGAGAC
GCTAACCCGCTTACGCAACATGGGCGTCCCCTCCTTCAACATCGCAACATCGGTCAACCTCATCATCGCGCAACGATTGG
CTCGCAGGCTATGCAAGACCTGCAAAACCAAGATGGAGGTGCCTCGAGAAACGCTGCTAGAAGAGGGCTTTTCTGCCGAA
AAAATTGATGCGGGCATTACAATTTATGGCCCCGTGGGTTGCGAAAATTGCAAAGACGGTTATAAAGGACGTGTTGGTAT
CTATGAGGTCGTCAAGATCACCCCTGCAATGCAGCGCATCATCATGGAAGACGGCAACTCTATTCAGATTTCTGACGTCG
CCCAGAGCGAGGGCTTCAGAAACTTGCGTCAGTCGGCACTCCTGAAGGTTCAGGAAGGAGTGACCAGCCTGGCGGAAGTA
AACCGAGTGACCAAGGATTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(42-146)

Type II/IV secretion system protein (T2SSE)

(189-456)


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
  pilB Acinetobacter baumannii D1279779

59.194

100

0.597
  pilB Acinetobacter baylyi ADP1

59.397

99.647

0.592
  pilB Legionella pneumophila strain ERS1305867

55.654

100

0.557
  pilF Neisseria gonorrhoeae MS11

49.823

99.647

0.496
  pilB Vibrio parahaemolyticus RIMD 2210633

49.822

99.293

0.495
  pilB Vibrio campbellii strain DS40M4

49.023

99.47

0.488
  pilB Vibrio cholerae strain A1552

51.894

93.286

0.484
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.924

92.933

0.371
  pilB/pilB1 Synechocystis sp. PCC 6803

39.231

91.873

0.36