Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   X875_RS06370 Genome accession   NZ_CP006953
Coordinates   1350023..1351414 (-) Length   463 a.a.
NCBI ID   WP_025342725.1    Uniprot ID   -
Organism   Mannheimia varigena USDA-ARS-USMARC-1388     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1345023..1356414
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  X875_RS06340 (X875_12570) lptE 1345789..1346277 (+) 489 WP_025342720.1 LPS assembly lipoprotein LptE -
  X875_RS06345 (X875_12580) holA 1346317..1347339 (+) 1023 WP_025342721.1 DNA polymerase III subunit delta -
  X875_RS06350 (X875_12590) yacG 1347340..1347525 (-) 186 WP_025217069.1 DNA gyrase inhibitor YacG -
  X875_RS06355 (X875_12600) coaE 1347507..1348142 (-) 636 WP_025342722.1 dephospho-CoA kinase -
  X875_RS06360 (X875_12610) - 1348174..1348830 (-) 657 WP_025342723.1 prepilin peptidase -
  X875_RS06365 (X875_12620) pilC 1348834..1350030 (-) 1197 WP_025342724.1 type II secretion system F family protein Machinery gene
  X875_RS06370 (X875_12630) pilB 1350023..1351414 (-) 1392 WP_025342725.1 GspE/PulE family protein Machinery gene
  X875_RS06375 (X875_12640) pilA 1351435..1351914 (-) 480 WP_025217064.1 prepilin peptidase-dependent pilin Machinery gene
  X875_RS06380 (X875_12650) radA 1352094..1353473 (+) 1380 WP_025247570.1 DNA repair protein RadA -
  X875_RS06385 (X875_12660) - 1353527..1353760 (-) 234 WP_025247569.1 YgjV family protein -
  X875_RS06390 (X875_12670) - 1353987..1355297 (-) 1311 WP_025342726.1 anaerobic C4-dicarboxylate transporter -
  X875_RS06395 (X875_12680) - 1355315..1356010 (-) 696 WP_025342727.1 aspartate/glutamate racemase family protein -

Sequence

Protein


Download         Length: 463 a.a.        Molecular weight: 52277.94 Da        Isoelectric Point: 5.3685

>NTDB_id=115173 X875_RS06370 WP_025342725.1 1350023..1351414(-) (pilB) [Mannheimia varigena USDA-ARS-USMARC-1388]
MEYTVTDLTSQEMIEISGEQWAKNCNEKQILLRYLAVPLQETQSQLWLAVDDMQNISACEIFAFIYHKQIEPVLISSDEL
KFLLNALSPEQSSLQSEIYEDNVAYSLAHSEQIDRNDPIIQILDNLFKFCLKNNASDIHLEPQKEKLLIRLRIDGVLHIY
KTLPQSLSSRLISRIKLLAKLDISETRLPQDGQFHFKTILAETLDFRVSTLPTHFGEKVVLRLQKNKPTNLDFLELGFNQ
NQKETLLNALNQPQGLILVTGPTGSGKSITLYSALSHLNTSEKHILTAEDPIEIEIEGIIQTQVNRGINLDFSQLLRTFL
RQDPDIIMLGEIRDEESAEIALRAAQTGHLVLSTLHTNDAPSAIERLLQLGIKEFELKNALLLVVAQRLLRRTCTKCGGI
GCENCYQGYKGRIGVYQLFSRSAKNFEKTTACLDFETLAESAKEKLSEGKTNQAEILRVLGNG

Nucleotide


Download         Length: 1392 bp        

>NTDB_id=115173 X875_RS06370 WP_025342725.1 1350023..1351414(-) (pilB) [Mannheimia varigena USDA-ARS-USMARC-1388]
ATGGAGTATACAGTTACAGATTTAACTAGCCAAGAAATGATTGAAATTTCTGGTGAGCAATGGGCAAAGAATTGTAATGA
AAAGCAGATTTTATTGCGATATTTAGCCGTTCCGTTGCAAGAAACACAATCTCAATTATGGTTGGCGGTGGATGATATGC
AAAATATCAGTGCTTGTGAGATTTTTGCCTTTATCTACCATAAGCAAATTGAACCTGTTTTGATTTCCTCCGATGAGTTG
AAGTTTCTGCTCAATGCGCTTTCACCAGAGCAGAGTAGCTTGCAGAGTGAAATTTATGAGGATAATGTAGCGTATTCATT
AGCACATTCGGAGCAAATAGACAGAAACGATCCGATTATCCAAATTTTAGATAATCTGTTTAAATTCTGTTTAAAAAATA
ACGCATCAGATATTCATCTTGAACCGCAAAAAGAGAAGTTGCTTATTCGGTTAAGAATTGACGGTGTATTGCATATTTAT
AAAACACTCCCACAAAGTTTATCGAGTAGACTGATTTCTCGCATTAAATTATTGGCTAAATTAGATATTAGTGAAACCCG
TTTACCACAAGACGGACAATTTCATTTTAAAACGATTTTAGCGGAAACCTTAGATTTCCGAGTTTCTACTTTGCCTACTC
ACTTTGGCGAAAAAGTGGTGCTGCGTTTACAAAAGAATAAGCCGACTAATTTGGATTTTCTGGAGTTAGGCTTTAATCAA
AATCAAAAAGAAACATTACTCAATGCCCTCAATCAACCTCAAGGATTAATTTTAGTAACAGGTCCAACAGGTAGCGGAAA
AAGTATCACTTTATATAGTGCATTAAGCCATCTTAATACTAGCGAAAAGCATATATTAACGGCAGAAGATCCGATTGAAA
TTGAGATAGAAGGTATTATTCAAACCCAAGTAAACAGGGGCATTAATCTTGATTTCAGCCAACTGTTGAGAACCTTTCTC
CGTCAAGACCCCGACATCATTATGCTTGGGGAAATTCGTGATGAAGAGAGTGCGGAAATTGCCCTAAGAGCAGCTCAAAC
AGGGCATTTAGTGCTTTCAACATTACATACCAATGATGCTCCTTCTGCGATAGAGCGATTGTTGCAACTCGGGATAAAAG
AATTCGAGCTGAAAAATGCGTTGTTGCTCGTGGTGGCTCAACGTTTATTAAGACGAACTTGCACAAAATGTGGCGGCATC
GGTTGCGAAAATTGCTATCAAGGCTACAAAGGAAGAATTGGGGTATATCAACTATTCAGCCGATCTGCAAAAAATTTTGA
AAAAACGACCGCTTGTTTGGATTTTGAAACCTTAGCTGAAAGTGCGAAAGAAAAATTATCGGAAGGAAAAACCAATCAGG
CAGAAATTTTGAGGGTGTTAGGAAATGGCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(131-392)

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

(29-93)


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

71.584

99.568

0.713
  pilB Haemophilus influenzae 86-028NP

57.522

97.624

0.562
  pilB Haemophilus influenzae Rd KW20

57.08

97.624

0.557
  pilB Vibrio parahaemolyticus RIMD 2210633

40.964

100

0.441
  pilB Vibrio cholerae strain A1552

40.763

100

0.438
  pilB Vibrio campbellii strain DS40M4

40.771

100

0.434
  pilB Legionella pneumophila strain ERS1305867

39.754

100

0.419
  pilB Acinetobacter baylyi ADP1

36.224

100

0.406
  pilB Acinetobacter baumannii D1279779

37.014

100

0.391
  pilF Neisseria gonorrhoeae MS11

39.765

91.793

0.365
  ctsE Campylobacter jejuni subsp. jejuni 81-176

40.288

90.065

0.363

Multiple sequence alignment