Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SNR28_RS23420 Genome accession   NZ_CP145311
Coordinates   2985340..2987025 (+) Length   561 a.a.
NCBI ID   WP_375751288.1    Uniprot ID   -
Organism   Vibrio sp. HN007     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2980340..2992025
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SNR28_RS23400 (SNR28_23375) pdhR 2982051..2982818 (-) 768 WP_375751284.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  SNR28_RS23405 (SNR28_23380) ampD 2983082..2983654 (-) 573 WP_375751285.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  SNR28_RS23410 (SNR28_23385) nadC 2983786..2984673 (+) 888 WP_375751286.1 carboxylating nicotinate-nucleotide diphosphorylase -
  SNR28_RS23415 (SNR28_23390) - 2984888..2985340 (+) 453 WP_375751287.1 pilin -
  SNR28_RS23420 (SNR28_23395) pilB 2985340..2987025 (+) 1686 WP_375751288.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SNR28_RS23425 (SNR28_23400) - 2986988..2988244 (+) 1257 WP_375751289.1 type II secretion system F family protein -
  SNR28_RS23430 (SNR28_23405) pilD 2988279..2989148 (+) 870 WP_375751290.1 prepilin peptidase Machinery gene
  SNR28_RS23435 (SNR28_23410) coaE 2989150..2989758 (+) 609 WP_375751291.1 dephospho-CoA kinase -
  SNR28_RS23440 (SNR28_23415) zapD 2989804..2990544 (+) 741 WP_375751292.1 cell division protein ZapD -
  SNR28_RS23445 (SNR28_23420) yaaA 2990603..2991376 (-) 774 WP_375751294.1 peroxide stress protein YaaA -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62389.92 Da        Isoelectric Point: 6.3005

>NTDB_id=938415 SNR28_RS23420 WP_375751288.1 2985340..2987025(+) (pilB) [Vibrio sp. HN007]
MDWRLLPILQKHNLISPSQEKQLLDALPGITSEVTAIIELGLLDSPVLAKELSSIFNLPLIALDSYDYSSVCQELGLRKL
ITSHTALPVNLKEHTLTLALTDPTNDQAIKDFQFATNYQVEMVLADHLTIVAAINKLYGEQLGDDTETGKDVISEELSKL
ITSAETDSKRPEDLSNSNEPIARYIHQILLEAIGKNASDIHFEPYEDHYRIRLRLDGILFESQPPPAKLAKRLSARIKIM
SQLDISEKRIPQDGRMKIKLKENMFVDLRVSTLPTLWGEKIVLRLLDRRTVDLDINTLGMTPRQADLYWNSLHTPQGLIL
VTGPTGSGKTVSLFSGLNILNKTERNISTAEDPVEINIPGINQVQINNKIGFGFSQALRAFLRQDPDIVMIGEIRDLETA
EIAVKAAQTGHLVLSTLHTNSALESLSRLKNIGVSDYNIVSSLNLMIAQRLCRKLCSSCKLPAQIPTSIKELFEPNAPIY
QANSQGCQKCHSGYLGRTGLYEVIEMTAELKDAMARSESILELESIARKQGAISLKQSGIEKLKQGITSYAELQRILKLS
L

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=938415 SNR28_RS23420 WP_375751288.1 2985340..2987025(+) (pilB) [Vibrio sp. HN007]
ATGGATTGGCGCTTACTTCCCATATTACAAAAACATAATCTCATTAGTCCGAGTCAGGAGAAGCAGTTGCTCGACGCTTT
GCCTGGTATAACGTCTGAGGTAACAGCCATTATCGAGCTCGGTCTGCTAGACTCACCTGTGCTGGCCAAAGAGCTGAGTT
CAATATTCAATCTTCCTTTAATAGCGCTTGATAGCTATGACTACTCAAGCGTCTGTCAGGAACTGGGATTAAGAAAGCTT
ATTACTTCTCACACAGCCCTTCCTGTTAACCTCAAAGAACATACGCTAACACTAGCTCTGACCGATCCTACTAACGATCA
AGCGATAAAAGACTTTCAGTTTGCAACTAACTACCAAGTAGAAATGGTATTAGCCGATCACCTGACTATAGTTGCTGCAA
TTAATAAGCTTTATGGAGAACAATTAGGAGACGACACCGAAACAGGTAAAGACGTTATTTCTGAAGAACTATCTAAGTTA
ATCACTTCAGCAGAAACAGACAGTAAGAGGCCCGAAGACCTTAGCAATAGTAATGAGCCTATCGCTCGGTATATTCACCA
AATTCTTCTGGAAGCTATCGGTAAAAACGCTTCCGACATACATTTTGAGCCCTATGAAGACCACTATCGTATTCGATTAA
GACTGGATGGCATTCTCTTTGAAAGTCAGCCCCCTCCAGCCAAGCTTGCTAAACGTTTGTCCGCACGCATCAAAATAATG
TCTCAACTGGACATATCTGAAAAGCGCATACCACAAGACGGTCGCATGAAGATAAAACTCAAAGAGAACATGTTTGTTGA
CCTACGTGTCTCAACACTACCAACACTTTGGGGTGAAAAAATCGTCTTACGACTTTTAGATAGAAGAACCGTTGATTTAG
ACATCAACACTCTTGGAATGACACCAAGACAAGCTGACTTGTATTGGAACTCCCTACATACTCCTCAAGGGTTGATTTTG
GTTACCGGCCCGACAGGCAGTGGAAAAACCGTCTCGCTCTTTTCCGGGTTAAACATTCTAAATAAGACCGAAAGAAACAT
ATCAACAGCAGAAGACCCCGTTGAAATAAACATACCGGGGATCAATCAAGTTCAGATTAACAATAAGATTGGATTCGGAT
TTTCGCAGGCACTCAGAGCATTTTTACGCCAAGACCCGGATATTGTCATGATAGGCGAAATCCGAGATTTAGAAACGGCA
GAAATAGCAGTAAAAGCGGCTCAAACCGGCCATTTAGTTTTGTCTACATTACACACGAACTCTGCTCTTGAATCGCTCTC
CAGACTCAAAAACATTGGCGTTTCTGATTACAATATTGTTTCATCATTAAACCTCATGATTGCTCAACGGCTATGTAGAA
AACTCTGTTCAAGTTGTAAATTGCCTGCTCAAATACCGACATCTATCAAAGAACTCTTTGAACCTAACGCCCCTATCTAT
CAGGCCAACTCACAAGGATGCCAAAAATGTCACTCAGGCTATCTTGGCCGCACTGGTCTCTATGAAGTGATTGAAATGAC
TGCTGAGTTAAAAGATGCGATGGCAAGAAGTGAAAGCATTCTCGAGTTAGAGTCTATCGCCCGGAAACAAGGTGCTATTT
CGCTAAAACAATCCGGAATAGAAAAACTCAAACAAGGAATCACCAGTTATGCCGAACTTCAGCGAATCCTCAAACTCTCA
CTATAG

Domains

Predicted by InterproScan.

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

(38-142)

Type II/IV secretion system protein (T2SSE)

(187-454)


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 parahaemolyticus RIMD 2210633

56.25

99.822

0.561
  pilB Vibrio campbellii strain DS40M4

56.6

98.574

0.558
  pilB Vibrio cholerae strain A1552

54.578

99.287

0.542
  pilB Acinetobacter baumannii D1279779

45.633

100

0.456
  pilB Legionella pneumophila strain ERS1305867

47.646

94.652

0.451
  pilB Acinetobacter baylyi ADP1

46.257

92.87

0.43
  pilF Neisseria gonorrhoeae MS11

40.497

100

0.406