Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VCA1004_RS09620 Genome accession   NZ_AP018689
Coordinates   2118475..2120163 (+) Length   562 a.a.
NCBI ID   WP_086981568.1    Uniprot ID   -
Organism   Vibrio aphrogenes strain CA-1004     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2113475..2125163
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VCA1004_RS09600 nhaC 2113856..2115331 (-) 1476 WP_086981564.1 Na+/H+ antiporter NhaC -
  VCA1004_RS09605 - 2115450..2116454 (-) 1005 WP_086981565.1 LacI family DNA-binding transcriptional regulator -
  VCA1004_RS09610 nadC 2116701..2117621 (+) 921 WP_086981566.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VCA1004_RS09615 pilA 2118017..2118475 (+) 459 WP_086981567.1 pilin Machinery gene
  VCA1004_RS09620 pilB 2118475..2120163 (+) 1689 WP_086981568.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VCA1004_RS09625 pilC 2120199..2121431 (+) 1233 WP_086981569.1 type II secretion system F family protein Machinery gene
  VCA1004_RS09630 pilD 2121469..2122362 (+) 894 WP_086981570.1 A24 family peptidase Machinery gene
  VCA1004_RS09635 coaE 2122366..2122989 (+) 624 WP_086981571.1 dephospho-CoA kinase -
  VCA1004_RS09640 zapD 2123035..2123766 (+) 732 WP_086981572.1 cell division protein ZapD -
  VCA1004_RS09645 yacG 2123806..2124006 (+) 201 WP_086981573.1 DNA gyrase inhibitor YacG -
  VCA1004_RS09650 mutT 2124450..2124848 (-) 399 WP_086981574.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62427.60 Da        Isoelectric Point: 6.1106

>NTDB_id=70409 VCA1004_RS09620 WP_086981568.1 2118475..2120163(+) (pilB) [Vibrio aphrogenes strain CA-1004]
MNTNLASILRQAELLNPEQEQLVVSSVLNDNKSVPVACVDAGFLSSNQLLNKLTTLFALSQAQLTHYPYTQVCEQLGMRD
LIVNHQVLPLQMDPHRLLIAVADPTNNEIENDFRFATGKQIELMLADCKELEGAIRRLYGRAVHSEHHKGKDITQDELAN
LVEVSSDEIQETEDLSQDEAPVSRFINQILLDAVRKGASDIHFEPYEDIYRVRLRCDGILLETNRPAPHLGRRLAARIKI
LSKLDIAERRLPQDGRIKIRLNADTAIDMRVSTLPTLWGEKIVLRLLDSSAANLNIDKLGYSETQKKLYLDALQQPQGMI
LMTGPTGSGKTVSLYTGLRLLNTPDKNISTAEDPVEINLTGINQVQVKPKIGFTFAAALRAFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSSAETIIRLSNMGIEAFNLASSLSLIIAQRLARRLCPHCKQVDEFPEALRQTFHIDNNI
PIFTANKQGCSECTGGYSGRVGIYEVMPFTTEIANAVIKKASANEIEMIAVKQGMATLRQSGIDNLKQGITSFSELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=70409 VCA1004_RS09620 WP_086981568.1 2118475..2120163(+) (pilB) [Vibrio aphrogenes strain CA-1004]
ATGAACACCAACCTTGCCTCCATTTTACGCCAAGCGGAACTCTTGAATCCTGAGCAAGAGCAGTTAGTGGTGAGCAGCGT
TTTAAACGATAATAAAAGCGTCCCCGTGGCTTGCGTGGACGCTGGATTTCTGTCTAGCAATCAACTGTTAAATAAACTCA
CGACACTCTTTGCCTTATCACAGGCTCAATTAACGCACTATCCATATACGCAAGTGTGTGAGCAACTAGGCATGCGAGAT
CTGATCGTAAATCATCAAGTTCTTCCATTGCAGATGGATCCTCACCGTCTCTTGATCGCTGTCGCCGATCCCACCAATAA
TGAAATTGAAAATGACTTCCGTTTTGCGACTGGTAAGCAAATAGAACTCATGCTTGCCGATTGCAAAGAATTGGAAGGGG
CGATTCGACGCTTGTATGGCCGCGCGGTTCATTCTGAACACCATAAAGGCAAAGACATAACCCAAGATGAACTTGCAAAC
TTGGTGGAAGTCAGCAGTGATGAGATTCAAGAAACGGAAGATTTAAGCCAAGATGAGGCCCCTGTCAGCCGCTTTATCAA
CCAAATATTGCTCGATGCTGTCCGCAAAGGGGCTTCCGATATTCATTTCGAACCCTACGAAGATATCTATCGCGTGCGCT
TACGTTGTGATGGCATTTTATTAGAAACCAATCGCCCTGCCCCTCATCTTGGAAGGCGACTTGCTGCACGGATAAAAATA
CTGTCAAAACTGGATATTGCCGAACGTCGATTACCACAAGATGGCCGCATTAAAATTCGCTTAAATGCGGATACGGCCAT
TGATATGCGCGTCTCCACCCTACCAACTTTATGGGGGGAAAAAATCGTCTTACGTCTACTCGACAGCAGTGCGGCCAATT
TAAACATCGATAAACTCGGCTATAGCGAAACACAAAAGAAACTGTATCTTGATGCCTTGCAACAACCCCAAGGTATGATC
CTGATGACCGGCCCAACTGGTAGTGGAAAAACCGTCTCTTTATATACCGGCCTACGTTTACTCAATACCCCAGATAAAAA
TATTTCTACTGCAGAGGATCCGGTTGAAATCAACTTAACAGGGATCAATCAAGTACAAGTAAAACCCAAAATTGGCTTCA
CCTTTGCGGCCGCTTTACGAGCATTTTTACGTCAAGATCCTGATGTGGTCATGGTCGGTGAAATACGAGATCTTGAAACA
GCTGAAATTGCAGTTAAAGCCGCACAAACCGGTCACTTAGTACTATCTACATTACACACTAACTCTTCGGCTGAAACCAT
CATCCGTTTGTCCAACATGGGAATTGAAGCTTTTAATCTCGCCTCCTCATTAAGCTTGATTATCGCTCAGCGTTTAGCGC
GTCGTTTATGTCCTCATTGCAAACAAGTTGATGAGTTCCCAGAAGCATTACGTCAAACCTTTCATATCGATAACAACATC
CCTATTTTTACCGCCAACAAACAGGGCTGCTCGGAGTGTACCGGTGGCTATTCAGGGCGTGTTGGTATCTATGAGGTCAT
GCCATTTACTACAGAAATTGCCAATGCGGTCATTAAAAAAGCCTCGGCCAATGAGATTGAAATGATTGCGGTAAAACAAG
GAATGGCGACCTTACGTCAATCGGGGATCGACAACTTAAAACAAGGCATCACCAGTTTTTCAGAGCTACAACGCGTGTTG
TATTTCTAG

Domains

Predicted by InterproScan.

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

(39-141)

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

69.573

100

0.696
  pilB Vibrio cholerae strain A1552

69.272

100

0.694
  pilB Vibrio campbellii strain DS40M4

68.149

100

0.681
  pilB Acinetobacter baumannii D1279779

50.192

92.883

0.466
  pilB Legionella pneumophila strain ERS1305867

46.168

99.822

0.461
  pilB Acinetobacter baylyi ADP1

51.753

86.299

0.447
  pilF Neisseria gonorrhoeae MS11

44.326

100

0.445
  pilF Thermus thermophilus HB27

41.109

93.06

0.383

Multiple sequence alignment