Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   A6B40_RS00435 Genome accession   NZ_CP016226
Coordinates   92826..94217 (+) Length   463 a.a.
NCBI ID   WP_176671233.1    Uniprot ID   -
Organism   Mannheimia varigena strain 177     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 87826..99217
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A6B40_RS00410 (A6B40_00410) - 88230..88925 (+) 696 WP_025247567.1 aspartate/glutamate racemase family protein -
  A6B40_RS00415 (A6B40_00415) - 88943..90253 (+) 1311 WP_176671232.1 anaerobic C4-dicarboxylate transporter -
  A6B40_RS00420 (A6B40_00420) - 90480..90713 (+) 234 WP_025247569.1 YgjV family protein -
  A6B40_RS00425 (A6B40_00425) radA 90767..92146 (-) 1380 WP_025247570.1 DNA repair protein RadA -
  A6B40_RS00430 (A6B40_00430) pilA 92326..92805 (+) 480 WP_025217064.1 prepilin peptidase-dependent pilin Machinery gene
  A6B40_RS00435 (A6B40_00435) pilB 92826..94217 (+) 1392 WP_176671233.1 GspE/PulE family protein Machinery gene
  A6B40_RS00440 (A6B40_00440) pilC 94210..95406 (+) 1197 WP_176671234.1 type II secretion system F family protein Machinery gene
  A6B40_RS00445 (A6B40_00445) - 95410..96066 (+) 657 WP_176671235.1 prepilin peptidase -
  A6B40_RS00450 (A6B40_00450) coaE 96098..96733 (+) 636 WP_025247575.1 dephospho-CoA kinase -
  A6B40_RS00455 (A6B40_00455) yacG 96715..96900 (+) 186 WP_176671236.1 DNA gyrase inhibitor YacG -
  A6B40_RS00460 (A6B40_00460) holA 96901..97923 (-) 1023 WP_176671237.1 DNA polymerase III subunit delta -
  A6B40_RS00465 (A6B40_00465) lptE 97963..98451 (-) 489 WP_112110826.1 LPS assembly lipoprotein LptE -

Sequence

Protein


Download         Length: 463 a.a.        Molecular weight: 52374.13 Da        Isoelectric Point: 5.8233

>NTDB_id=186386 A6B40_RS00435 WP_176671233.1 92826..94217(+) (pilB) [Mannheimia varigena strain 177]
MEYTVTDLTSQEMIEISGKQWAKNCNEKQILLRYLAVPLQETQSQLWLAVDDMQNISACEIFAFIYHKQIEPVLISSDEL
KFLLNALSPEQSSLQSEIYEDNVAYSLAHSEQIDRNDPIIQILDNLFKFCLKNNASDIHLEPQKEKLLIRLRIDGVLHIY
KTLPQSLSSRLISRIKLLAKLDISEIRLPQDGQFHFKTMLAETLDFRVSTLPTHFGEKVVLRLQKNKPTNLDFLELGFNQ
NQKETLLNALNQPQGLILVTGPTGSGKSITLYSALSHLNTSEKHILTAEDPIEIEIEGIIQTQVNRGINLDFSQLLRTFL
RQDPDIVMLGEIRDEESAEIALRASQTGHLVLSTLHTNDAPSAIERLLQLGIKEYELQNALLLVVAQRLLRRICTKCRGA
GCEHCYQGYKGRIGVYQLFSRTAKNFEKTTACLDFATLSESAKEKLAEGKTDQAEILRVLGNG

Nucleotide


Download         Length: 1392 bp        

>NTDB_id=186386 A6B40_RS00435 WP_176671233.1 92826..94217(+) (pilB) [Mannheimia varigena strain 177]
ATGGAGTATACAGTTACAGATTTAACTAGCCAAGAAATGATTGAAATTTCTGGTAAGCAATGGGCAAAGAATTGTAATGA
AAAGCAGATTTTATTGCGATATTTAGCCGTTCCGTTGCAAGAAACACAATCTCAATTATGGTTGGCGGTGGATGATATGC
AAAATATCAGTGCTTGTGAGATTTTTGCCTTTATCTACCATAAGCAAATTGAACCTGTTTTGATTTCCTCCGATGAGTTG
AAGTTTCTGCTCAATGCGCTTTCACCAGAGCAGAGTAGCTTGCAGAGTGAAATTTATGAGGATAATGTAGCGTATTCATT
AGCACATTCGGAGCAAATAGACAGAAACGATCCGATTATCCAAATTTTAGATAATCTGTTTAAATTCTGTTTAAAAAATA
ACGCATCAGATATTCATCTTGAACCGCAAAAAGAGAAGTTGCTTATTCGGTTAAGAATTGACGGTGTATTACATATTTAT
AAAACACTTCCGCAAAGTTTATCTAGCAGGTTGATTTCTCGCATTAAGCTGTTAGCTAAATTAGATATTAGCGAAATCCG
TTTGCCACAAGATGGGCAATTTCATTTCAAAACGATGTTAGCGGAAACTTTAGATTTCCGAGTTTCTACTTTGCCTACTC
ATTTTGGCGAAAAGGTCGTCCTTCGGCTTCAAAAGAATAAACCGACTAATTTGGATTTTTTGGAGTTAGGTTTTAACCAA
AACCAAAAAGAAACATTACTCAATGCACTCAACCAACCTCAAGGATTAATTCTGGTAACAGGTCCAACAGGTAGCGGAAA
AAGTATCACTTTATATAGTGCATTAAGCCATCTCAATACTAGCGAAAAGCATATATTAACCGCTGAAGATCCGATTGAAA
TTGAGATAGAAGGTATTATTCAAACCCAAGTAAACAGGGGCATTAATCTTGATTTCAGCCAACTGTTGAGAACCTTTCTC
CGCCAAGATCCCGACATCGTTATGCTTGGTGAAATTCGTGATGAAGAGAGTGCTGAAATTGCCCTAAGAGCATCTCAAAC
AGGGCATTTAGTGCTTTCTACTTTGCACACAAACGATGCTCCTTCTGCCATAGAACGATTATTGCAACTCGGAATTAAAG
AATATGAGTTACAAAATGCGTTATTGTTAGTAGTAGCTCAACGCTTGTTAAGAAGGATTTGTACAAAATGCAGAGGGGCT
GGTTGTGAGCATTGCTATCAAGGCTACAAAGGGCGAATTGGGGTGTATCAACTTTTTAGCCGAACTGCAAAAAATTTTGA
AAAAACGACCGCTTGTTTAGATTTTGCAACCTTATCGGAAAGTGCAAAAGAAAAATTAGCGGAAGGAAAAACCGATCAGG
CTGAAATTTTAAGGGTATTAGGTAATGGTTAA

Domains

Predicted by InterproScan.

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

(29-93)

Type II/IV secretion system protein (T2SSE)

(131-392)


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

72.234

99.568

0.719
  pilB Haemophilus influenzae 86-028NP

56.733

97.84

0.555
  pilB Haemophilus influenzae Rd KW20

56.637

97.624

0.553
  pilB Vibrio cholerae strain A1552

40.562

100

0.436
  pilB Vibrio parahaemolyticus RIMD 2210633

40.562

100

0.436
  pilB Vibrio campbellii strain DS40M4

40.568

100

0.432
  pilB Legionella pneumophila strain ERS1305867

39.344

100

0.415
  pilB Acinetobacter baylyi ADP1

36.81

100

0.389
  pilB Acinetobacter baumannii D1279779

36.605

100

0.387
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.653

100

0.374
  ctsE Campylobacter jejuni subsp. jejuni 81-176

41.007

90.065

0.369
  pilF Neisseria gonorrhoeae MS11

39.294

91.793

0.361

Multiple sequence alignment