Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   E5Q53_RS08685 Genome accession   NZ_CP038817
Coordinates   1798592..1799977 (-) Length   461 a.a.
NCBI ID   WP_005707356.1    Uniprot ID   -
Organism   Haemophilus parahaemolyticus strain NEB129     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1793592..1804977
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E5Q53_RS08665 (E5Q53_08660) yacG 1795932..1796117 (-) 186 WP_005707322.1 DNA gyrase inhibitor YacG -
  E5Q53_RS08670 (E5Q53_08665) coaE 1796105..1796731 (-) 627 WP_005707349.1 dephospho-CoA kinase -
  E5Q53_RS08675 (E5Q53_08670) - 1796752..1797396 (-) 645 WP_005707389.1 A24 family peptidase -
  E5Q53_RS08680 (E5Q53_08675) pilC 1797403..1798599 (-) 1197 WP_005707359.1 type II secretion system F family protein Machinery gene
  E5Q53_RS08685 (E5Q53_08680) pilB 1798592..1799977 (-) 1386 WP_005707356.1 GspE/PulE family protein Machinery gene
  E5Q53_RS08690 (E5Q53_08685) pilA 1800045..1800512 (-) 468 WP_005707325.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  E5Q53_RS08695 (E5Q53_08690) radA 1800704..1802083 (+) 1380 WP_005707288.1 DNA repair protein RadA Machinery gene
  E5Q53_RS08700 (E5Q53_08695) - 1802098..1802988 (+) 891 WP_039863409.1 RimK family alpha-L-glutamate ligase -
  E5Q53_RS08705 (E5Q53_08700) rlmD 1802990..1804324 (-) 1335 WP_039863408.1 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD -
  E5Q53_RS08710 (E5Q53_08705) - 1804338..1804592 (-) 255 WP_005707339.1 Txe/YoeB family addiction module toxin -
  E5Q53_RS08715 (E5Q53_08710) yefM 1804589..1804840 (-) 252 WP_005707332.1 YoeB-YefM toxin-antitoxin system antitoxin YefM -

Sequence

Protein


Download         Length: 461 a.a.        Molecular weight: 53049.81 Da        Isoelectric Point: 5.4833

>NTDB_id=355782 E5Q53_RS08685 WP_005707356.1 1798592..1799977(-) (pilB) [Haemophilus parahaemolyticus strain NEB129]
MTYTVCDLNTQNIFEISEHQWQKNCEEKTILLRYLAIPVKEDKEKLWLAIDDLNNLTAYEIFSFIAHKEIEPILISTEEL
KYLLNELSPKKDIIYETTEIIYSENNQQVELDHTDPVIHLLDELFNDCLQKNVSDIHLEPQKNRFMIRLRIDGVLHIYKT
LSLNLSSRIISRLKILAKLDISETRLPQDGQFHFKTTISDTLDFRVSTLPTHFGEKIVLRLQKNKPINLDFLELGFNQNQ
KTILLDALNQPQGLILVTGPTGSGKSITLYSALSYLNQSEKHILTAEDPIEIEIEGIIQTQVDRGIGLDFSQLLRTFLRQ
DPDIIMFGEIRDEESAQMALRASQTGHLVLSTLHTNDALSAVERLLQLGIKEFELRNSLQLVIAQRLVRKICTYCQSHGC
EHCYQGYKGRIGVYQLLSKNGKEFEKSTAYLDFSTLAESAMQKYQENKTNLSEIQRVLGYV

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=355782 E5Q53_RS08685 WP_005707356.1 1798592..1799977(-) (pilB) [Haemophilus parahaemolyticus strain NEB129]
ATGACTTACACTGTTTGCGATTTAAACACTCAAAATATTTTTGAAATCTCTGAGCACCAATGGCAGAAAAATTGCGAAGA
GAAAACGATTCTTTTACGTTATTTAGCCATTCCCGTGAAAGAAGATAAAGAGAAATTATGGCTTGCTATTGATGATTTGA
ATAATCTGACCGCTTATGAGATCTTTTCCTTTATTGCTCATAAAGAGATTGAGCCCATTTTAATTTCTACTGAGGAATTA
AAATACCTATTAAATGAGCTTTCGCCTAAAAAAGATATTATTTATGAAACAACGGAAATTATTTATTCGGAAAACAACCA
GCAAGTAGAATTAGACCATACTGATCCAGTAATTCATCTGCTAGATGAATTATTTAATGATTGTCTACAGAAAAATGTTT
CCGATATTCATTTAGAACCACAGAAAAATAGATTTATGATCCGCTTGCGGATTGATGGCGTTTTGCATATTTATAAAACG
CTATCTCTGAATTTATCTAGTCGAATTATTTCCAGATTAAAAATTCTCGCAAAATTGGATATTAGCGAAACTCGTTTACC
GCAAGATGGACAATTCCACTTTAAAACAACAATTTCTGATACTTTAGATTTTCGTGTTTCTACATTGCCAACTCATTTTG
GTGAAAAAATAGTACTGCGTTTGCAAAAAAATAAACCTATTAATTTAGATTTTTTAGAACTCGGATTTAATCAAAACCAG
AAAACAATTTTATTAGATGCATTAAATCAACCACAAGGTTTAATATTGGTGACAGGTCCAACAGGTAGCGGAAAAAGTAT
TACATTATATAGTGCACTTAGTTATTTAAATCAGAGTGAAAAACATATTCTAACAGCTGAAGATCCAATAGAAATAGAAA
TTGAAGGCATCATTCAAACGCAAGTTGATCGTGGTATTGGGTTAGATTTCAGCCAATTATTACGCACCTTTTTACGCCAA
GATCCCGATATTATTATGTTTGGTGAAATTCGAGATGAAGAAAGTGCTCAAATGGCACTTCGAGCCTCACAAACAGGGCA
TTTAGTGCTTTCAACGCTTCACACTAACGATGCACTATCAGCGGTGGAACGACTTTTGCAACTTGGAATTAAAGAGTTTG
AACTAAGAAACAGTTTGCAATTAGTCATTGCTCAACGTTTAGTTAGGAAAATCTGCACATATTGTCAAAGTCATGGCTGT
GAACATTGCTATCAGGGTTACAAAGGACGAATTGGTGTGTATCAATTACTTTCAAAAAATGGAAAAGAATTTGAAAAATC
GACCGCTTATTTAGATTTTTCTACTTTAGCGGAAAGTGCAATGCAAAAATATCAAGAAAATAAAACTAATTTATCAGAAA
TACAACGAGTATTAGGCTATGTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(125-390)

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

70.524

99.349

0.701
  pilB Haemophilus influenzae 86-028NP

57.778

97.614

0.564
  pilB Haemophilus influenzae Rd KW20

57.111

97.614

0.557
  pilB Vibrio parahaemolyticus RIMD 2210633

39.8

100

0.432
  pilB Vibrio campbellii strain DS40M4

39.839

100

0.43
  pilB Vibrio cholerae strain A1552

38.956

100

0.421
  pilB Legionella pneumophila strain ERS1305867

38.241

100

0.406
  pilB Acinetobacter baylyi ADP1

37.12

100

0.397
  pilB/pilB1 Synechocystis sp. PCC 6803

39.269

95.011

0.373
  pilB Acinetobacter baumannii D1279779

34.969

100

0.371

Multiple sequence alignment