Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   QF117_RS18510 Genome accession   NZ_CP124614
Coordinates   2769600..2771345 (+) Length   581 a.a.
NCBI ID   WP_282387516.1    Uniprot ID   -
Organism   Vibrio sp. YMD68     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2764600..2776345
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QF117_RS18480 (QF117_18480) - 2764829..2765659 (-) 831 WP_282387507.1 DsbC family protein -
  QF117_RS18485 (QF117_18485) xerD 2765676..2766605 (-) 930 WP_282387508.1 site-specific tyrosine recombinase XerD -
  QF117_RS18490 (QF117_18490) fldB 2766750..2767268 (+) 519 WP_282387509.1 flavodoxin FldB -
  QF117_RS18495 (QF117_18495) ampD 2767337..2767876 (-) 540 WP_282387511.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  QF117_RS18500 (QF117_18500) nadC 2768009..2768899 (+) 891 WP_282387512.1 carboxylating nicotinate-nucleotide diphosphorylase -
  QF117_RS18505 (QF117_18505) - 2769163..2769600 (+) 438 WP_282387514.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  QF117_RS18510 (QF117_18510) pilB 2769600..2771345 (+) 1746 WP_282387516.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QF117_RS18515 (QF117_18515) pilC 2771467..2772693 (+) 1227 WP_282387517.1 type II secretion system F family protein Machinery gene
  QF117_RS18520 (QF117_18520) pilD 2772831..2773700 (+) 870 WP_282387518.1 A24 family peptidase Machinery gene
  QF117_RS18525 (QF117_18525) coaE 2773791..2774444 (+) 654 WP_282387519.1 dephospho-CoA kinase -
  QF117_RS18530 (QF117_18530) zapD 2774431..2775171 (+) 741 WP_282387520.1 cell division protein ZapD -
  QF117_RS18535 (QF117_18535) yacG 2775378..2775575 (+) 198 WP_282387521.1 DNA gyrase inhibitor YacG -
  QF117_RS18540 (QF117_18540) rplS 2775872..2776225 (-) 354 WP_017036649.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 581 a.a.        Molecular weight: 64018.07 Da        Isoelectric Point: 5.0136

>NTDB_id=826781 QF117_RS18510 WP_282387516.1 2769600..2771345(+) (pilB) [Vibrio sp. YMD68]
MLTSLPAILRQADLISVVQEQNIIEHVIASGMSVPEALLDLELFDHHQLTGHLSALFGLTPTPLSQFDYATLCHSLGLRE
LISRYQALPLHIDGMVLSLAVSDPTRSEIEDEFRFATGLQVELVLVDLNDLKSAIRRLYGQTVSTSTSSAKDISQDELAS
LVDVTEDEIQTIENLSQDDAPVSRFINQVLLDAVRKGASDIHFEPYDESYRIRLRCDGLLVQTQAPANHLSRRLSARLKI
LAKLDISERRLPQDGRIKLRLDETTAIDMRVSTLPTLWGEKIVLRLLDSSSASLNIDKLGYNDQQKQLYLKALKQPQGMI
LMTGPTGSGKTVSLYAGLSILNTPEVNISTAEDPVEINLSGVNQVQVQPKIGFGFAQALRSFLRQDPDIVMVGEIRDLDT
AQIAIKAAQTGHLVLSTLHTNSASETIVRLGNMGIEGFNLASSLSLIIAQRLARKLCSHCKIPHYQPAEFEVSRFEASQF
KASSLDPSLFEALNLSPDDTLFKANPDGCNECNAGYSGRTGIYEVMPFNHELADAVMKGASMIEIESLAKSQGMQTLQQS
GIEKLKQGITSYSELQRVLYF

Nucleotide


Download         Length: 1746 bp        

>NTDB_id=826781 QF117_RS18510 WP_282387516.1 2769600..2771345(+) (pilB) [Vibrio sp. YMD68]
ATGCTTACCAGCCTCCCTGCCATCTTGCGCCAGGCTGACTTAATCAGCGTGGTGCAAGAGCAAAATATCATCGAGCACGT
GATCGCTTCGGGCATGTCGGTCCCCGAAGCACTGCTTGATCTCGAGCTGTTCGACCACCATCAACTCACTGGCCACCTAA
GTGCACTCTTTGGCCTAACGCCCACACCATTATCTCAATTCGACTACGCTACGTTATGTCACTCTCTGGGGCTTAGGGAG
CTGATCAGCCGTTATCAAGCCCTGCCCTTACACATTGATGGCATGGTGCTTTCTTTAGCTGTTTCAGACCCCACCCGCAG
TGAAATAGAAGATGAATTTCGCTTTGCGACAGGGTTGCAAGTTGAGTTGGTCTTAGTCGACTTAAACGATCTTAAATCCG
CGATTCGTCGTTTGTACGGTCAGACAGTGTCAACGTCCACCTCATCAGCCAAAGACATCAGTCAGGACGAACTGGCCAGT
CTGGTCGATGTCACAGAGGATGAAATACAGACGATAGAGAACCTCAGTCAAGACGATGCGCCCGTGAGCCGTTTCATCAA
CCAAGTATTGCTCGATGCGGTAAGAAAAGGCGCTTCAGATATTCATTTTGAACCTTATGATGAGAGCTATCGAATTCGCT
TACGCTGTGATGGCCTATTGGTGCAAACCCAGGCACCAGCAAATCACCTCAGTCGCCGCCTTTCTGCGCGGCTAAAAATA
CTCGCGAAACTGGATATCTCTGAACGTCGTTTGCCACAAGATGGGCGGATAAAGCTTCGACTCGATGAAACAACGGCCAT
TGATATGCGCGTTTCGACATTGCCCACGTTATGGGGTGAAAAGATTGTATTGCGCCTACTCGACAGCAGCAGTGCCAGCC
TTAATATTGATAAACTGGGCTACAATGACCAACAAAAGCAGCTTTACCTAAAGGCACTCAAGCAGCCACAAGGCATGATC
CTAATGACAGGGCCAACGGGCAGTGGAAAAACCGTTTCTTTGTATGCAGGGCTAAGCATCCTCAACACCCCTGAAGTGAA
CATATCAACCGCGGAAGACCCTGTTGAAATCAATCTATCGGGCGTAAACCAAGTGCAGGTTCAACCTAAAATTGGCTTTG
GTTTTGCTCAAGCACTTCGCTCTTTCTTACGACAAGATCCTGATATTGTGATGGTGGGTGAAATTCGTGATTTGGATACC
GCACAAATAGCAATAAAAGCTGCGCAAACTGGCCACTTAGTGCTCTCCACATTACACACAAATTCCGCTTCTGAAACCAT
TGTTCGCCTCGGCAACATGGGCATTGAAGGTTTTAATCTGGCTTCTTCGTTAAGCCTGATTATCGCTCAACGCCTTGCTA
GAAAGCTTTGTTCCCACTGTAAAATACCGCATTACCAACCAGCTGAGTTTGAAGTATCTCGGTTTGAAGCATCTCAGTTT
AAAGCATCGTCGTTGGACCCATCGTTATTTGAAGCACTCAACCTCTCCCCAGACGATACTCTCTTTAAAGCTAATCCTGA
TGGCTGCAACGAATGCAACGCTGGATATTCAGGAAGAACGGGAATTTACGAAGTGATGCCATTTAACCATGAATTAGCTG
ATGCGGTGATGAAAGGCGCTTCTATGATCGAAATAGAATCACTAGCAAAATCACAAGGCATGCAAACGCTGCAACAATCT
GGCATAGAAAAACTAAAACAGGGCATTACCAGCTACTCAGAATTGCAGCGAGTGCTCTACTTCTAA

Domains

Predicted by InterproScan.

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

(38-142)

Type II/IV secretion system protein (T2SSE)

(188-455)


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 Vibrio cholerae strain A1552

70.912

100

0.709
  pilB Vibrio parahaemolyticus RIMD 2210633

70.052

100

0.701
  pilB Vibrio campbellii strain DS40M4

68.33

100

0.683
  pilB Legionella pneumophila strain ERS1305867

51.145

90.189

0.461
  pilB Acinetobacter baumannii D1279779

49.533

92.083

0.456
  pilB Acinetobacter baylyi ADP1

50

90.534

0.453
  pilF Neisseria gonorrhoeae MS11

43.674

99.312

0.434
  pilB/pilB1 Synechocystis sp. PCC 6803

36.913

100

0.379