Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HPK20_RS12250 Genome accession   NZ_CP053664
Coordinates   2654022..2655710 (+) Length   562 a.a.
NCBI ID   WP_171934101.1    Uniprot ID   -
Organism   Vibrio fluvialis strain A8     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2649022..2660710
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPK20_RS12220 (HPK20_12240) dsbC 2649384..2650148 (-) 765 WP_055452474.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -
  HPK20_RS12225 (HPK20_12245) xerD 2650165..2651073 (-) 909 WP_020331983.1 site-specific tyrosine recombinase XerD -
  HPK20_RS12230 (HPK20_12250) fldB 2651214..2651735 (+) 522 WP_171933908.1 flavodoxin FldB -
  HPK20_RS12235 (HPK20_12255) ampD 2651771..2652325 (-) 555 WP_171933909.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  HPK20_RS12240 (HPK20_12260) nadC 2652478..2653365 (+) 888 WP_171933910.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HPK20_RS12245 (HPK20_12265) pilA 2653597..2654016 (+) 420 WP_024374400.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  HPK20_RS12250 (HPK20_12270) pilB 2654022..2655710 (+) 1689 WP_171934101.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPK20_RS12255 (HPK20_12275) pilC 2655746..2656972 (+) 1227 WP_171933911.1 type II secretion system F family protein Machinery gene
  HPK20_RS12260 (HPK20_12280) pilD 2657024..2657893 (+) 870 WP_171933912.1 A24 family peptidase Machinery gene
  HPK20_RS12265 (HPK20_12285) coaE 2657896..2658504 (+) 609 WP_171933913.1 dephospho-CoA kinase -
  HPK20_RS12270 (HPK20_12290) zapD 2658537..2659277 (+) 741 WP_020332196.1 cell division protein ZapD -
  HPK20_RS12275 (HPK20_12295) yacG 2659332..2659529 (+) 198 WP_020332195.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 61995.92 Da        Isoelectric Point: 6.3024

>NTDB_id=446134 HPK20_RS12250 WP_171934101.1 2654022..2655710(+) (pilB) [Vibrio fluvialis strain A8]
MLTNLLAILRQADLLSPTQEKAVMDHIHASGTNVPEALIDLAIFHNHDLTEHLSQIFGLPNTDLTRFDFAPLCQQLGLRE
LITRYQALPLNSNGQVLTLAVSDPTHLQVEDEFRFATGLQVELVLADHKALQAAIRRLYGRAITSHGTQGKEISQDELAS
LVQVSDDEKTSIEDLSQDDSPVSRFINQILLDAVRKGASDIHFEPYESFYRIRLRCDGILVEIQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLNTDTAIDMRVSTLPTLWGEKIVLRLLDSSASSLDIDKLGYNDAQKQLYLAALTKPQGMI
LMTGPTGSGKTVSLYTGLRILNTDEVNISTAEDPVEINLPGINQVQVQPKIGFGFAQALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAESVIRLANMGIEPFNLASSLSLIIAQRLARRLCPHCKVATSPSPTLQQQFHLSSQQ
PIYAANPSGCNECTNGYSGRVGIYEVMALNSALAEAIMQRANIHQIESIAQQHGMQTLLQSGIEKLRAGITSFSELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=446134 HPK20_RS12250 WP_171934101.1 2654022..2655710(+) (pilB) [Vibrio fluvialis strain A8]
ATGCTCACCAACCTACTCGCCATCCTGCGTCAGGCCGATTTGCTTAGCCCTACGCAGGAAAAGGCCGTGATGGATCATAT
TCACGCTTCCGGAACCAATGTGCCGGAGGCGTTGATCGATTTGGCGATATTCCATAACCACGATCTGACCGAGCATCTAA
GCCAGATCTTTGGTCTGCCGAATACGGATCTGACCCGTTTTGACTTCGCGCCGCTTTGCCAGCAGTTGGGGCTGCGCGAG
CTCATCACCCGTTATCAGGCTCTGCCCCTCAACAGCAACGGTCAGGTACTGACTCTTGCGGTATCCGATCCGACTCACCT
ACAAGTTGAAGACGAGTTTCGTTTTGCGACCGGGTTACAAGTAGAACTGGTATTAGCTGATCATAAAGCACTGCAAGCCG
CTATTCGCCGCTTGTATGGCCGAGCCATCACGTCACATGGCACGCAGGGCAAGGAGATCAGCCAGGACGAACTGGCCAGT
CTGGTGCAAGTTTCCGATGACGAAAAAACATCAATCGAAGATCTGAGTCAGGATGACTCCCCGGTCAGTCGTTTTATCAA
CCAGATCCTGCTGGATGCGGTGCGTAAAGGCGCTTCTGATATCCACTTTGAGCCCTATGAATCCTTTTATCGCATTCGCC
TGCGCTGCGACGGTATTTTGGTGGAAATCCAGCAACCAGCTAGCCATTTAAGCCGTCGATTGGCCGCGCGGATTAAGATT
TTGTCGAAACTCGATATCGCTGAGCGACGTTTACCGCAAGACGGCCGCATCAAATTACGCCTCAATACGGACACGGCCAT
TGATATGCGGGTCTCCACTTTGCCAACCTTGTGGGGGGAGAAAATCGTCCTGCGTCTGCTCGACAGCAGTGCGTCCAGCC
TCGATATCGACAAGTTGGGTTATAACGATGCGCAAAAGCAGCTTTATCTGGCGGCCCTCACCAAGCCGCAAGGCATGATT
CTGATGACAGGCCCGACGGGCAGCGGTAAGACAGTCTCACTCTATACCGGCCTTCGCATTCTCAACACCGACGAAGTGAA
TATTTCTACCGCCGAAGACCCGGTGGAAATTAACCTGCCCGGCATTAACCAGGTTCAGGTGCAGCCCAAAATTGGTTTTG
GCTTTGCGCAGGCTCTGCGCTCCTTTCTGCGTCAGGATCCCGATGTGGTAATGGTGGGCGAAATCCGCGATTTGGAAACG
GCAGAGATTGCCGTCAAAGCCGCCCAAACCGGCCACTTAGTGCTATCCACACTACACACCAACTCCGCCGCCGAAAGCGT
GATTCGGCTGGCGAACATGGGCATTGAACCGTTCAACCTCGCTTCATCGCTGAGCCTCATCATCGCTCAACGACTTGCCC
GGCGCCTTTGCCCTCATTGCAAAGTCGCCACATCGCCCTCTCCGACACTGCAGCAACAATTTCACTTGAGTTCTCAGCAG
CCTATCTATGCCGCCAACCCATCAGGCTGCAACGAGTGCACCAACGGTTACAGCGGGCGGGTGGGGATTTATGAAGTGAT
GGCATTAAACTCCGCGCTGGCTGAAGCGATTATGCAACGAGCCAACATCCATCAAATCGAATCCATTGCCCAGCAACATG
GCATGCAAACGCTGTTGCAATCGGGGATCGAAAAACTTCGCGCCGGGATCACCAGTTTCAGTGAGTTGCAGCGTGTTCTC
TATTTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(39-141)


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

82.206

100

0.822
  pilB Vibrio campbellii strain DS40M4

72.242

100

0.722
  pilB Vibrio parahaemolyticus RIMD 2210633

71.352

100

0.714
  pilB Legionella pneumophila strain ERS1305867

52.805

91.993

0.486
  pilB Acinetobacter baumannii D1279779

50.289

92.349

0.464
  pilB Acinetobacter baylyi ADP1

48.956

93.772

0.459
  pilF Neisseria gonorrhoeae MS11

44.681

100

0.448
  pilF Thermus thermophilus HB27

37.189

100

0.372
  pilB/pilB1 Synechocystis sp. PCC 6803

37.636

97.865

0.368