Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GJV39_RS11005 Genome accession   NZ_CP046114
Coordinates   2173003..2174388 (-) Length   461 a.a.
NCBI ID   WP_021110379.1    Uniprot ID   -
Organism   Glaesserella parasuis strain SCW0912     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2168003..2179388
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GJV39_RS10980 (GJV39_10980) clpP 2168020..2168601 (+) 582 WP_010787003.1 ATP-dependent Clp endopeptidase proteolytic subunit ClpP -
  GJV39_RS10985 (GJV39_10985) clpX 2168608..2169858 (+) 1251 WP_021110376.1 ATP-dependent protease ATP-binding subunit ClpX -
  GJV39_RS10990 (GJV39_10990) dapE 2169932..2171065 (-) 1134 WP_005711772.1 succinyl-diaminopimelate desuccinylase -
  GJV39_RS10995 (GJV39_10995) - 2171149..2171817 (-) 669 WP_021110377.1 prepilin peptidase -
  GJV39_RS11000 (GJV39_11000) pilC 2171814..2173010 (-) 1197 WP_021110378.1 type II secretion system F family protein Machinery gene
  GJV39_RS11005 (GJV39_11005) pilB 2173003..2174388 (-) 1386 WP_021110379.1 GspE/PulE family protein Machinery gene
  GJV39_RS11010 (GJV39_11010) pilA 2174436..2174900 (-) 465 WP_005711781.1 pilin Machinery gene
  GJV39_RS11015 (GJV39_11015) radA 2175088..2176464 (+) 1377 WP_021110380.1 DNA repair protein RadA -
  GJV39_RS11020 (GJV39_11020) gmk 2176517..2177143 (-) 627 WP_005711785.1 guanylate kinase -
  GJV39_RS11025 (GJV39_11025) - 2177212..2178183 (-) 972 WP_012621529.1 IS110 family transposase -
  GJV39_RS11030 (GJV39_11030) gpt 2178584..2179063 (-) 480 WP_005714020.1 xanthine phosphoribosyltransferase -

Sequence

Protein


Download         Length: 461 a.a.        Molecular weight: 52670.48 Da        Isoelectric Point: 5.0532

>NTDB_id=401150 GJV39_RS11005 WP_021110379.1 2173003..2174388(-) (pilB) [Glaesserella parasuis strain SCW0912]
MSQYTICEQQTERIFDISPSRWQKNCEEKQLLLRYLAVPVQETEHKLWLAVDDENNLTACEIFAFMTHKQIEPVVIASDE
LKYLLNALSPEQQPFYEESELAFAEQEQEQLNLSDPIIQLLDNLFKFCLAQNASDIHIEPRKQKLIIRLRIDGVLHLYKS
LSIQLASRLISRIKLLAKLDISELRQPQDGQFSFTTALADTLDFRVSSLPTIYGEKLVLRLQKNKPTSFDFLQLGFNPQQ
QTTLLNALKQPQGLILVTGPTGSGKSITLYSALNYLNQMDKHILTAEDPVEIEIDGLIQTQVNQSINLDFSQLLRTFLRQ
DPDIIMLGEIRDEESAKMALRASQTGHLVLSTLHTNDALLAVERLLQLGIQEYEIQNSLLLVIAQRLVRKLCKKCCGTGC
DECYQGYKGRIGIYQCLSRTAKKFDKQTAYLDFSSLRESAKQKIEQQLTNEIEVDRVLGDE

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=401150 GJV39_RS11005 WP_021110379.1 2173003..2174388(-) (pilB) [Glaesserella parasuis strain SCW0912]
ATGTCCCAATACACTATCTGCGAACAACAAACCGAACGCATTTTTGATATATCGCCTAGCCGTTGGCAAAAAAATTGCGA
GGAGAAACAGCTTTTATTGCGTTACCTTGCCGTTCCTGTGCAAGAAACTGAGCATAAATTATGGCTTGCCGTTGATGATG
AAAACAATCTCACCGCTTGCGAAATCTTTGCTTTTATGACCCATAAGCAGATTGAGCCTGTGGTGATTGCTTCTGATGAA
CTTAAATACTTGCTTAACGCACTCTCGCCTGAGCAACAGCCCTTTTATGAAGAGAGCGAACTGGCTTTCGCAGAACAAGA
GCAAGAACAGCTCAACTTAAGCGATCCGATTATTCAACTGCTCGATAATCTTTTTAAATTCTGTTTAGCCCAAAATGCGT
CCGACATTCATATTGAACCACGCAAGCAAAAATTGATTATTCGCCTACGCATTGACGGTGTTTTGCACCTGTATAAAAGC
CTGTCTATTCAACTGGCAAGCCGACTTATTTCACGGATAAAACTGCTGGCGAAGCTAGATATTAGTGAATTACGCCAGCC
ACAAGATGGGCAATTTAGCTTTACCACCGCCTTGGCGGACACCCTTGATTTTCGGGTATCTAGCCTGCCGACGATCTACG
GCGAAAAACTGGTATTGCGCCTACAAAAAAACAAACCAACCAGTTTTGATTTTCTGCAACTTGGCTTTAATCCACAACAG
CAGACCACACTACTCAACGCCTTGAAACAACCGCAAGGGCTGATTTTAGTGACAGGACCAACGGGCAGTGGCAAAAGTAT
CACCTTGTATAGTGCCTTAAACTACCTCAACCAAATGGATAAACATATTCTCACCGCCGAAGATCCTGTGGAAATTGAGA
TTGACGGCTTAATTCAAACCCAAGTCAATCAAAGTATTAACCTTGATTTTAGCCAGCTATTACGCACCTTTCTACGCCAA
GATCCCGACATCATTATGCTAGGTGAAATTCGAGATGAAGAGAGTGCAAAAATGGCATTAAGAGCAAGCCAGACGGGGCA
TTTAGTCCTTTCAACCCTGCATACCAATGACGCACTATTAGCGGTTGAACGTTTGTTACAACTGGGTATTCAAGAGTATG
AAATCCAAAATTCACTACTGTTAGTCATTGCACAACGCCTTGTGCGTAAGCTCTGCAAAAAGTGTTGTGGCACAGGCTGT
GATGAGTGCTATCAAGGCTATAAAGGGCGGATCGGGATTTACCAATGCTTAAGCAGAACTGCAAAAAAATTCGATAAACA
GACCGCTTACTTAGATTTTTCCAGCTTACGAGAGAGTGCTAAACAAAAAATTGAACAACAACTAACCAACGAAATCGAAG
TGGATAGGGTATTAGGCGATGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(129-390)

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

(30-92)


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

97.397

100

0.974
  pilB Haemophilus influenzae 86-028NP

56.957

99.783

0.568
  pilB Haemophilus influenzae Rd KW20

57.582

98.698

0.568
  pilB Vibrio cholerae strain A1552

38.554

100

0.416
  pilB Vibrio campbellii strain DS40M4

39.293

100

0.41
  pilB Acinetobacter baumannii D1279779

36.576

100

0.408
  pilB Vibrio parahaemolyticus RIMD 2210633

39.004

100

0.408
  pilB Acinetobacter baylyi ADP1

37.03

100

0.406
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.085

100

0.388
  pilB Legionella pneumophila strain ERS1305867

40.455

95.445

0.386
  pilF Neisseria gonorrhoeae MS11

36.441

100

0.373

Multiple sequence alignment