Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY10_RS12400 Genome accession   NZ_CP046767
Coordinates   2637212..2638900 (-) Length   562 a.a.
NCBI ID   WP_158151729.1    Uniprot ID   -
Organism   Vibrio fluvialis strain 2013V-1300     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2632212..2643900
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY10_RS12375 yacG 2633393..2633590 (-) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  GPY10_RS12380 zapD 2633645..2634385 (-) 741 WP_020332196.1 cell division protein ZapD -
  GPY10_RS12385 coaE 2634418..2635026 (-) 609 WP_061056140.1 dephospho-CoA kinase -
  GPY10_RS12390 pilD 2635029..2635898 (-) 870 WP_024374403.1 prepilin peptidase Machinery gene
  GPY10_RS12395 pilC 2635950..2637176 (-) 1227 WP_020332199.1 type II secretion system F family protein Machinery gene
  GPY10_RS12400 pilB 2637212..2638900 (-) 1689 WP_158151729.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY10_RS12405 pilA 2638907..2639329 (-) 423 WP_158125403.1 pilin Machinery gene
  GPY10_RS12410 nadC 2639559..2640446 (-) 888 WP_158129993.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY10_RS12415 ampD 2640598..2641149 (+) 552 WP_158151730.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY10_RS12420 fldB 2641154..2641675 (-) 522 WP_020331982.1 flavodoxin FldB -
  GPY10_RS12425 xerD 2641816..2642724 (+) 909 WP_020331983.1 site-specific tyrosine recombinase XerD -
  GPY10_RS12430 dsbC 2642741..2643505 (+) 765 WP_158151731.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 61999.82 Da        Isoelectric Point: 6.2647

>NTDB_id=407430 GPY10_RS12400 WP_158151729.1 2637212..2638900(-) (pilB) [Vibrio fluvialis strain 2013V-1300]
MNTNLLAILRQADLLSPTQEQAVMDHIHASGTNVPEALIDLAIFHHHELTEHLSQIFGLPNTDLTRFDFAPLCQQLGLRE
LITRYQALPLNSSGQVLTLAVSDPTHLQVEDEFRFATGLQIELVLADHKALQAAIRRLYGRTIASHGTQGKEISQDELAS
LVQVSDEEKTSIEDLSQDDSPVSRFINQILLDAVRKGASDIHFEPYESFYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLNADTAIDMRVSTLPTLWGEKIVLRLLDSSASSLDIDKLGYNDAQKQLYLAALTKPQGMI
LMTGPTGSGKTVSLYTGLRILNTDEVNISTAEDPVEINLPGINQVQVQPKIGFGFAQALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAESVIRLANMGIEPFNLASSLSLIIAQRLARRLCPHCKVATSPSPTLQQQFHLSSQQ
PIYAANPSGCNECTNGYSGRVGIYEVMAFNSALAEAIMQRASIHQIESIAQQHGMQTLLQSGIEKLRAGITSFSELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=407430 GPY10_RS12400 WP_158151729.1 2637212..2638900(-) (pilB) [Vibrio fluvialis strain 2013V-1300]
ATGAACACCAACCTACTCGCCATCCTGCGTCAGGCCGATTTGCTTAGCCCTACGCAGGAACAGGCCGTGATGGATCATAT
TCACGCTTCCGGAACCAATGTGCCGGAGGCGTTGATCGATTTGGCGATCTTCCATCACCATGAACTGACCGAGCATCTAA
GCCAGATCTTTGGTTTGCCGAATACGGATCTGACCCGTTTTGACTTCGCGCCGCTGTGCCAGCAGTTGGGGCTGCGCGAG
CTCATCACCCGTTATCAGGCTCTGCCCCTCAACAGCAGCGGTCAGGTACTGACTCTTGCGGTATCCGATCCTACTCACCT
ACAAGTTGAAGACGAGTTTCGTTTTGCGACCGGGTTACAAATAGAACTGGTATTGGCTGATCATAAGGCACTGCAGGCCG
CTATTCGCCGCTTGTATGGCCGAACCATCGCGTCACATGGCACACAGGGCAAGGAGATCAGCCAGGACGAACTGGCCAGT
CTGGTGCAGGTTTCCGATGAAGAAAAAACATCAATCGAAGATCTGAGTCAGGATGACTCCCCGGTCAGTCGTTTCATCAA
CCAGATCCTGCTTGACGCGGTGCGTAAAGGCGCTTCTGATATCCATTTTGAGCCCTATGAATCCTTTTATCGCATTCGCC
TGCGCTGCGACGGCATTTTGGTGGAAACCCAGCAACCAGCCAGCCATTTAAGCCGCCGACTGGCTGCGCGAATTAAGATC
TTATCGAAACTCGATATCGCTGAGCGACGTTTACCGCAAGACGGCCGCATCAAATTACGCCTCAATGCGGACACGGCCAT
TGATATGCGGGTCTCCACTTTGCCAACCTTGTGGGGGGAGAAAATCGTCCTGCGTCTGCTCGACAGCAGTGCGTCCAGCC
TCGATATCGACAAGTTGGGTTATAACGATGCGCAAAAGCAGCTTTATCTGGCGGCCCTCACCAAGCCGCAAGGCATGATT
CTGATGACTGGCCCGACGGGCAGCGGTAAGACAGTCTCACTCTATACCGGCCTTCGCATTCTCAACACCGACGAAGTGAA
TATTTCTACCGCCGAAGACCCGGTGGAAATTAACCTGCCCGGCATTAACCAGGTTCAGGTGCAGCCCAAAATTGGTTTTG
GCTTTGCGCAGGCTCTGCGCTCCTTTCTGCGTCAGGATCCCGATGTGGTGATGGTGGGCGAAATCCGCGATTTGGAAACG
GCAGAGATTGCCGTCAAAGCCGCCCAAACCGGCCACTTGGTGCTATCCACACTGCACACCAACTCCGCCGCCGAAAGCGT
GATTCGGCTGGCGAACATGGGCATTGAACCGTTTAACCTCGCTTCATCGCTGAGCCTCATCATCGCTCAACGACTTGCCC
GGCGCCTTTGCCCTCACTGCAAAGTCGCCACATCACCCTCTCCGACACTGCAACAACAATTTCACTTGAGTTCTCAGCAG
CCTATCTATGCCGCCAACCCATCAGGCTGCAACGAGTGCACCAACGGTTACAGCGGGCGGGTGGGGATTTATGAAGTGAT
GGCATTTAACTCCGCGCTGGCTGAAGCGATTATGCAACGAGCCAGCATCCATCAAATCGAATCCATTGCCCAGCAACATG
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

82.562

100

0.826
  pilB Vibrio campbellii strain DS40M4

72.064

100

0.721
  pilB Vibrio parahaemolyticus RIMD 2210633

71.708

100

0.717
  pilB Legionella pneumophila strain ERS1305867

52.224

91.993

0.48
  pilB Acinetobacter baumannii D1279779

49.806

91.815

0.457
  pilB Acinetobacter baylyi ADP1

48.674

93.95

0.457
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

38.364

97.865

0.375
  pilF Thermus thermophilus HB27

37.544

100

0.375

Multiple sequence alignment