Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   U9966_RS05180 Genome accession   NZ_OY856306
Coordinates   1094428..1095825 (+) Length   465 a.a.
NCBI ID   WP_306346857.1    Uniprot ID   -
Organism   Pasteurella atlantica isolate PAF6K1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1089428..1100825
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U9966_RS05155 ndk 1089682..1090098 (+) 417 WP_306346853.1 nucleoside-diphosphate kinase -
  U9966_RS05160 - 1090106..1091653 (-) 1548 WP_322631725.1 peptide ABC transporter substrate-binding protein -
  U9966_RS05165 - 1091661..1092311 (-) 651 WP_211599304.1 YchE family NAAT transporter -
  U9966_RS05170 radA 1092389..1093765 (-) 1377 WP_306346855.1 DNA repair protein RadA -
  U9966_RS05175 pilA 1093944..1094402 (+) 459 WP_306346856.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  U9966_RS05180 pilB 1094428..1095825 (+) 1398 WP_306346857.1 GspE/PulE family protein Machinery gene
  U9966_RS05185 pilC 1095812..1097002 (+) 1191 WP_306346858.1 type II secretion system F family protein Machinery gene
  U9966_RS05190 - 1097002..1097679 (+) 678 WP_306346859.1 prepilin peptidase -
  U9966_RS05195 coaE 1097948..1098556 (+) 609 WP_306346930.1 dephospho-CoA kinase -
  U9966_RS05200 yacG 1098577..1098768 (+) 192 WP_211599310.1 DNA gyrase inhibitor YacG -
  U9966_RS05205 - 1098795..1099262 (-) 468 WP_211599311.1 Lrp/AsnC family transcriptional regulator -

Sequence

Protein


Download         Length: 465 a.a.        Molecular weight: 53516.14 Da        Isoelectric Point: 5.7117

>NTDB_id=1162150 U9966_RS05180 WP_306346857.1 1094428..1095825(+) (pilB) [Pasteurella atlantica isolate PAF6K1]
MQYNVYDLNNEKVWTISEQRWQKNCNDSQLLLRYLVLPLKEDEHTLWLALDDENNLNACEIFSFLTHKHIEPILISSDEL
KYFLNELSPNRMNDQINEPQIALYNQKNSDEIIDYQDPIIQLLDNIFKYSLQKEVSDIHIEPQKDLLVIRLRIDGVLQRY
QTISQNMASRIISRIKLLAKLDISETRLPQDGQFYFQTQLNERLDFRVSTLPTYYGEKLVLRLQKNNPTNLDFVTLGFTQ
SQRKILTNALNKPQGLILVTGPTGSGKSITLYSALNYLNQTDKHILTAEDPIEIVIEGIIQTQVNRSIGIDFSQLLRTFL
RQDPDIIMLGEIRDQESAEIALRAAQTGHLVLSTLHTNDAPSAIERLLQLGIKEYEIKHSLQLVIAQRLIRKLCSNCNGT
GCENCFEGYKGRIGVFQCLSKNAKTFDKETAYLDFKTLYDSAKQKVAQNQTNLTEVMRVIGNESI

Nucleotide


Download         Length: 1398 bp        

>NTDB_id=1162150 U9966_RS05180 WP_306346857.1 1094428..1095825(+) (pilB) [Pasteurella atlantica isolate PAF6K1]
ATGCAATATAATGTTTATGATTTGAACAATGAAAAAGTATGGACTATTTCTGAACAAAGGTGGCAGAAGAATTGCAATGA
TAGTCAGCTTTTATTACGTTATCTTGTGTTACCACTAAAAGAAGATGAACATACATTATGGTTGGCACTGGATGATGAAA
ACAATCTCAATGCTTGTGAAATATTTTCATTTTTAACTCATAAACATATTGAACCAATATTAATTTCCTCTGATGAATTA
AAATATTTTTTAAATGAACTCTCTCCAAATAGGATGAATGATCAAATTAATGAACCACAAATTGCACTTTATAATCAAAA
AAACAGTGATGAAATTATTGATTATCAAGATCCTATTATCCAGCTATTAGATAATATTTTTAAATACAGTTTACAAAAAG
AGGTATCTGATATTCATATTGAACCTCAAAAAGATCTTTTGGTTATTCGTTTAAGAATAGATGGCGTTCTACAGCGTTAT
CAAACTATTTCTCAAAATATGGCATCTAGAATTATTTCCAGAATTAAATTATTAGCAAAATTAGACATTAGTGAAACTCG
CTTGCCTCAAGATGGGCAATTTTATTTCCAAACACAATTAAATGAGCGATTAGATTTTAGGGTTTCAACGTTACCCACTT
ATTATGGTGAAAAATTAGTTTTACGTTTACAAAAAAATAATCCAACAAATTTAGATTTTGTTACCTTAGGGTTTACCCAA
TCTCAAAGGAAAATTTTAACTAATGCTTTAAATAAACCACAAGGATTAATTTTAGTTACAGGTCCAACAGGAAGTGGGAA
AAGTATTACTCTTTATAGTGCATTAAATTATCTTAATCAAACCGATAAACATATTTTAACTGCTGAAGATCCCATTGAAA
TTGTGATTGAGGGTATTATCCAAACTCAAGTAAACAGAAGTATTGGGATTGATTTTAGTCAATTGTTACGTACATTTTTA
CGTCAAGATCCTGATATCATTATGCTTGGTGAAATTCGAGATCAAGAAAGTGCAGAAATCGCATTAAGAGCAGCTCAAAC
TGGACATCTAGTACTTTCGACATTACATACCAATGATGCGCCCTCTGCAATAGAGCGTTTATTACAACTGGGTATTAAAG
AGTATGAGATTAAGCATTCACTACAATTAGTGATTGCACAACGCTTAATTAGAAAATTATGTTCTAATTGTAATGGTACA
GGGTGTGAAAATTGTTTTGAAGGCTATAAAGGCAGAATTGGGGTGTTTCAATGTTTATCAAAAAATGCAAAAACCTTTGA
TAAAGAGACCGCTTATTTAGATTTTAAAACTTTATATGACAGTGCAAAACAGAAAGTGGCACAAAATCAAACAAATCTAA
CCGAAGTAATGAGGGTGATCGGTAATGAAAGTATATGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(128-392)

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

(29-91)


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 Glaesserella parasuis strain SC1401

69.048

99.355

0.686
  pilB Haemophilus influenzae Rd KW20

57.582

97.849

0.563
  pilB Haemophilus influenzae 86-028NP

55.895

98.495

0.551
  pilB Legionella pneumophila strain ERS1305867

38.012

100

0.419
  pilB Vibrio parahaemolyticus RIMD 2210633

39.375

100

0.406
  pilB Vibrio campbellii strain DS40M4

39.457

100

0.406
  pilB Vibrio cholerae strain A1552

38.046

100

0.394
  pilB Acinetobacter baylyi ADP1

37.5

100

0.394
  pilB Acinetobacter baumannii D1279779

37.037

100

0.387
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.555

100

0.374
  ctsE Campylobacter jejuni subsp. jejuni 81-176

40.964

89.247

0.366

Multiple sequence alignment