Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   J4N42_RS11930 Genome accession   NZ_CP071859
Coordinates   2692186..2693871 (+) Length   561 a.a.
NCBI ID   WP_252028229.1    Uniprot ID   -
Organism   Vibrio sp. SCSIO 43135     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2687186..2698871
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J4N42_RS11900 (J4N42_11890) - 2687380..2688186 (-) 807 WP_252028220.1 thioredoxin fold domain-containing protein -
  J4N42_RS11905 (J4N42_11895) xerD 2688202..2689098 (-) 897 WP_252030842.1 site-specific tyrosine recombinase XerD -
  J4N42_RS11910 (J4N42_11900) fldB 2689257..2689775 (+) 519 WP_252028222.1 flavodoxin FldB -
  J4N42_RS11915 (J4N42_11905) ampD 2689880..2690434 (-) 555 WP_252028224.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  J4N42_RS11920 (J4N42_11910) nadC 2690590..2691492 (+) 903 WP_252028226.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J4N42_RS11925 (J4N42_11915) - 2691747..2692175 (+) 429 WP_252028227.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  J4N42_RS11930 (J4N42_11920) pilB 2692186..2693871 (+) 1686 WP_252028229.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J4N42_RS11935 (J4N42_11925) pilC 2693895..2695121 (+) 1227 WP_252028230.1 type II secretion system F family protein Machinery gene
  J4N42_RS11940 (J4N42_11930) pilD 2695167..2696036 (+) 870 WP_252028231.1 A24 family peptidase Machinery gene
  J4N42_RS11945 (J4N42_11935) coaE 2696038..2696652 (+) 615 WP_252028232.1 dephospho-CoA kinase -
  J4N42_RS11950 (J4N42_11940) zapD 2696679..2697419 (+) 741 WP_252028233.1 cell division protein ZapD -
  J4N42_RS11955 (J4N42_11945) yacG 2697499..2697696 (+) 198 WP_252028234.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 61923.85 Da        Isoelectric Point: 5.1729

>NTDB_id=548513 J4N42_RS11930 WP_252028229.1 2692186..2693871(+) (pilB) [Vibrio sp. SCSIO 43135]
MLTNLATILRQAELLSPTQEQALGEHIQASGTCVPEALLALDIFSHQELTTHLSQLFGLPETDITRFDYSSLCGQLGLRE
LITRFQALPLLSNNSVLTIAVADPTHIQIEDEFRFATGLQVELVLADFKVIQSAIRQLYGKRIGQQASGNRDISQDELAD
LVEVADDEINAIEDLSQDDSPVSRFINQILLDAVRKGASDIHFEPYEDLYRVRLRCDGILVETQQPANHLSRRLSARVKI
LASLDIAERRLPQDGRIKLKLNETTAVDMRVSTLPTLWGEKIVLRILDSSSANLDIDKLGYNEQQKQLYLQALKRPQGMI
LMTGPTGSGKTVSLYTGLSILNTSQVNISTAEDPVEINLTGINQVQVQPKIGFGFAQALRSFLRQDPDIVMVGEIRDFET
AEIAVKASQTGHLVLSTLHTNSAAETVVRLSNMGVEAFNLASSLSLIIAQRLARRLCSHCKTPVQDDALIHQLSLPKEST
LFEANPKGCSECTGGYLGRVGIYEVMPFDDKLSQAVIKGAVVQDIELLAKSRGMQTLKESGLEKLKHGITSYSELQRVLY
L

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=548513 J4N42_RS11930 WP_252028229.1 2692186..2693871(+) (pilB) [Vibrio sp. SCSIO 43135]
GTGCTCACCAACCTCGCAACCATACTTCGCCAAGCAGAGCTGCTCTCACCTACTCAAGAGCAAGCACTTGGCGAACATAT
ACAAGCTTCAGGAACATGTGTTCCTGAAGCTTTACTTGCTCTCGACATCTTCAGTCATCAAGAACTCACCACTCATCTAA
GCCAGCTCTTTGGTTTACCCGAAACGGACATTACTCGATTTGATTACTCATCTCTTTGTGGCCAACTAGGACTACGAGAG
CTGATTACTCGCTTTCAAGCACTCCCGCTACTCAGCAATAATTCAGTTTTGACCATTGCGGTAGCCGATCCTACTCATAT
CCAAATCGAAGACGAGTTTCGTTTCGCTACAGGGCTACAAGTCGAGTTAGTTCTGGCTGACTTCAAAGTGATTCAATCGG
CGATCCGGCAACTGTATGGTAAGCGAATCGGTCAGCAGGCTTCTGGCAATCGGGACATAAGCCAAGACGAACTCGCCGAT
CTTGTCGAAGTGGCCGATGATGAAATCAACGCGATTGAAGATCTTAGCCAAGACGACTCCCCCGTGAGTCGATTTATCAA
CCAAATCTTGCTCGATGCGGTCCGAAAAGGGGCCTCAGATATTCATTTTGAGCCATACGAAGACCTTTATCGAGTGCGCC
TCCGCTGCGATGGAATATTGGTTGAAACCCAACAGCCTGCCAACCATCTCAGCCGGCGCTTGTCGGCGCGAGTGAAAATT
CTAGCTAGCCTTGATATCGCAGAACGTAGGCTGCCGCAAGATGGGCGCATCAAGCTCAAGCTAAACGAAACCACAGCCGT
CGACATGCGCGTTTCAACCCTACCAACCCTTTGGGGGGAGAAAATAGTACTCCGTATTCTAGATAGTAGCAGCGCAAATT
TGGATATCGATAAATTGGGTTATAACGAACAACAAAAGCAACTGTACCTGCAAGCACTTAAACGTCCTCAGGGCATGATT
CTAATGACAGGCCCAACGGGGAGTGGAAAAACGGTCTCCCTATATACAGGCCTTTCCATTCTCAACACGTCCCAAGTCAA
CATATCTACTGCTGAAGATCCGGTTGAGATCAACTTGACCGGGATAAATCAAGTTCAGGTACAACCAAAGATCGGTTTCG
GTTTCGCCCAAGCACTACGATCATTCCTTCGTCAAGATCCGGATATCGTCATGGTAGGGGAAATTCGCGATTTTGAAACC
GCAGAGATCGCCGTTAAAGCTTCGCAAACAGGCCATCTCGTCTTATCAACTCTCCATACTAACTCTGCGGCAGAAACCGT
AGTTCGATTAAGTAACATGGGGGTCGAAGCCTTCAACCTTGCCTCATCCCTCAGCCTAATTATCGCCCAGCGATTAGCTC
GCAGGCTTTGTTCACATTGTAAGACTCCAGTACAGGATGATGCATTAATTCACCAACTCTCTCTGCCGAAAGAAAGCACG
CTATTTGAAGCCAATCCCAAAGGGTGTAGTGAATGTACTGGTGGTTATTTAGGGCGGGTTGGGATTTACGAAGTAATGCC
ATTTGATGACAAGCTTTCTCAAGCTGTCATAAAAGGCGCAGTGGTTCAGGACATTGAACTACTGGCTAAATCGCGAGGAA
TGCAAACGTTAAAAGAGTCAGGGCTCGAAAAGCTGAAGCATGGCATAACCAGCTACAGTGAACTGCAGCGCGTTCTTTAT
CTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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

75.623

100

0.758
  pilB Vibrio parahaemolyticus RIMD 2210633

72.371

100

0.724
  pilB Vibrio campbellii strain DS40M4

71.836

100

0.718
  pilB Legionella pneumophila strain ERS1305867

49.117

100

0.496
  pilB Acinetobacter baumannii D1279779

49.811

94.118

0.469
  pilB Acinetobacter baylyi ADP1

49.336

93.939

0.463
  pilF Neisseria gonorrhoeae MS11

43.085

100

0.433
  pilB/pilB1 Synechocystis sp. PCC 6803

36.913

100

0.392
  pilF Thermus thermophilus HB27

38.419

96.97

0.373