Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   BSZ04_RS11000 Genome accession   NZ_CP018312
Coordinates   397732..399417 (-) Length   561 a.a.
NCBI ID   WP_088880391.1    Uniprot ID   -
Organism   Vibrio rotiferianus strain B64D1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 392732..404417
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BSZ04_RS10970 (BSZ04_10865) rplS 392985..393338 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  BSZ04_RS10975 (BSZ04_10870) yacG 393914..394108 (-) 195 WP_088880388.1 DNA gyrase inhibitor YacG -
  BSZ04_RS10980 (BSZ04_10875) zapD 394171..394911 (-) 741 WP_045393845.1 cell division protein ZapD -
  BSZ04_RS10985 (BSZ04_10880) coaE 394940..395554 (-) 615 WP_088880389.1 dephospho-CoA kinase -
  BSZ04_RS10990 (BSZ04_10885) pilD 395555..396424 (-) 870 WP_010450189.1 prepilin peptidase Machinery gene
  BSZ04_RS10995 (BSZ04_10890) pilC 396495..397718 (-) 1224 WP_088880390.1 type II secretion system F family protein Machinery gene
  BSZ04_RS11000 (BSZ04_10895) pilB 397732..399417 (-) 1686 WP_088880391.1 type IV-A pilus assembly ATPase PilB Machinery gene
  BSZ04_RS11005 (BSZ04_10900) pilA 399421..399870 (-) 450 WP_088880392.1 pilin Machinery gene
  BSZ04_RS11010 (BSZ04_10905) nadC 400098..400985 (-) 888 WP_088880393.1 carboxylating nicotinate-nucleotide diphosphorylase -
  BSZ04_RS11015 (BSZ04_10910) ampD 401078..401629 (+) 552 WP_038885735.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  BSZ04_RS11020 (BSZ04_10915) pdhR 402034..402801 (+) 768 WP_005446261.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62167.23 Da        Isoelectric Point: 5.8327

>NTDB_id=207992 BSZ04_RS11000 WP_088880391.1 397732..399417(-) (pilB) [Vibrio rotiferianus strain B64D1]
MQASLVSALSKAGLLTPAQQASIAKETESLGIELPEALTRLKLFSPQELSETLANIFGLRVVSIDNYDYHSICSQLNQRE
LITLHNALPLKRSNSTLLLAIADPTNLQVEEDFRFATGLQIELVLVDWHILQSSIRRVYGKALSQEHASPRDINQDELIN
LVELDDNELDTIEDLSQDSSPVSRYINQILLDAVRKGASDIHFEPYESIYRVRLRCDGILMEVQQPPSHLSRRLSARLKI
LSKLDIAERRLPQDGRIKLKLNNDTAIDMRVSTLPTLFGEKIVLRLLDNSSASLAIDHLGYSEAQKQAYLQALSRPQGMI
LMTGPTGSGKTVSLYAGLNILNQPEVNISTAEDPIEINLLGINQVQIQPKIGFTFAEALRSFLRQDPDIVMVGEIRDIET
AEIAMKASQTGHLVLSTLHTNSAAETVTRLSNMGITNYNLSSSLSLVIAQRLARKLCNHCKKITNSSNQQLLDIGITDEV
IYEANTRGCSECNNGYFGRTGIYEVMIFDEPLIQAVANGITSSQLEKLAVKNGMHTLKMSGIAKLKQGITSLNELQRVLF
L

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=207992 BSZ04_RS11000 WP_088880391.1 397732..399417(-) (pilB) [Vibrio rotiferianus strain B64D1]
ATGCAAGCAAGTTTAGTTAGCGCTCTTAGCAAGGCCGGATTATTGACTCCAGCGCAGCAGGCGTCTATAGCTAAAGAAAC
AGAGTCCTTAGGCATTGAGTTGCCTGAGGCTCTTACTCGTTTGAAGCTATTTTCACCGCAAGAACTGAGTGAAACATTAG
CCAATATATTTGGGCTAAGGGTCGTCAGTATAGATAATTATGACTACCACTCAATATGTTCACAGTTAAACCAGCGGGAA
CTCATTACTCTCCATAATGCACTGCCTTTAAAGCGCTCAAACTCAACACTTCTGTTAGCCATCGCAGACCCAACGAATTT
ACAAGTAGAGGAAGATTTCCGATTTGCCACGGGGTTGCAAATCGAACTTGTTTTAGTGGACTGGCACATATTGCAATCAT
CGATTAGAAGAGTATATGGCAAAGCCCTTTCTCAAGAGCATGCAAGTCCGAGAGATATCAACCAAGACGAACTCATCAAC
CTCGTTGAACTGGATGACAATGAACTAGATACGATTGAAGATTTAAGCCAAGATAGCTCACCTGTCAGTCGTTATATCAA
CCAAATCCTTCTAGATGCTGTACGGAAAGGGGCGTCGGACATTCACTTTGAGCCTTATGAAAGCATTTACCGAGTGAGGC
TTCGATGTGATGGTATTCTCATGGAAGTACAACAACCTCCAAGTCACCTTAGTCGTCGCTTATCCGCTCGACTAAAAATC
CTATCCAAGCTCGATATTGCTGAAAGACGCTTACCTCAAGATGGTCGAATTAAGCTAAAACTTAACAACGATACCGCTAT
TGATATGCGAGTTTCGACACTTCCGACCTTATTCGGAGAGAAGATCGTTTTAAGGTTACTCGATAACAGTTCGGCATCAT
TAGCCATTGACCATCTAGGCTACAGCGAGGCACAGAAACAGGCATACCTACAAGCTCTCAGCCGCCCCCAGGGCATGATA
TTGATGACGGGACCAACCGGAAGTGGCAAAACCGTCTCTCTTTATGCTGGCTTAAACATTTTAAATCAACCAGAAGTGAA
TATATCTACCGCTGAAGATCCTATCGAAATCAACTTACTAGGTATCAACCAAGTTCAAATCCAGCCAAAAATAGGATTCA
CATTTGCAGAAGCCCTACGCTCATTTTTAAGACAAGACCCTGACATCGTTATGGTTGGAGAAATTCGAGATATTGAGACC
GCAGAAATAGCAATGAAGGCCTCTCAAACTGGCCATTTAGTGCTGTCCACCTTGCATACCAACTCTGCCGCAGAAACTGT
CACTCGCTTGAGTAATATGGGCATCACCAACTATAACTTGTCTTCTTCACTGAGCTTAGTGATTGCTCAGAGGTTAGCTC
GTAAGCTCTGCAATCATTGTAAAAAAATCACAAATAGCTCAAACCAACAACTGCTAGATATAGGAATTACGGATGAAGTA
ATTTATGAAGCAAATACAAGAGGTTGTAGCGAGTGTAACAATGGATATTTTGGCAGAACTGGCATTTATGAAGTTATGAT
CTTTGATGAACCACTCATTCAAGCGGTCGCTAACGGAATAACTAGCTCCCAACTCGAGAAACTCGCAGTAAAAAATGGAA
TGCATACGCTAAAAATGTCAGGCATAGCAAAGTTGAAGCAAGGCATAACCAGCCTAAACGAACTACAGCGAGTTCTATTT
TTGTGA

Domains

Predicted by InterproScan.

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

(38-143)

Type II/IV secretion system protein (T2SSE)

(188-455)


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 Vibrio parahaemolyticus RIMD 2210633

70.996

100

0.711
  pilB Vibrio campbellii strain DS40M4

70.107

100

0.702
  pilB Vibrio cholerae strain A1552

64.894

100

0.652
  pilB Acinetobacter baumannii D1279779

50.958

93.048

0.474
  pilB Legionella pneumophila strain ERS1305867

48.976

95.722

0.469
  pilB Acinetobacter baylyi ADP1

48.184

93.226

0.449
  pilF Neisseria gonorrhoeae MS11

43.54

100

0.439
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.388

99.643

0.373

Multiple sequence alignment