Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HPY05_RS02335 Genome accession   NZ_CP053810
Coordinates   485641..487329 (-) Length   562 a.a.
NCBI ID   WP_175246756.1    Uniprot ID   -
Organism   Vibrio cholerae strain W6G     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 480641..492329
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPY05_RS02310 (HPY05_02310) yacG 481697..481894 (-) 198 WP_175246755.1 DNA gyrase inhibitor YacG -
  HPY05_RS02315 (HPY05_02315) zapD 482052..482792 (-) 741 WP_000207194.1 cell division protein ZapD -
  HPY05_RS02320 (HPY05_02320) coaE 482824..483432 (-) 609 WP_000011553.1 dephospho-CoA kinase -
  HPY05_RS02325 (HPY05_02325) pilD 483429..484304 (-) 876 WP_000418748.1 A24 family peptidase Machinery gene
  HPY05_RS02330 (HPY05_02330) pilC 484362..485588 (-) 1227 WP_148504744.1 type II secretion system F family protein Machinery gene
  HPY05_RS02335 (HPY05_02335) pilB 485641..487329 (-) 1689 WP_175246756.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPY05_RS02340 (HPY05_02340) - 487352..487831 (-) 480 WP_172858753.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  HPY05_RS02345 (HPY05_02345) nadC 488076..488966 (-) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HPY05_RS02350 (HPY05_02350) ampD 489262..489807 (+) 546 WP_000567317.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  HPY05_RS02355 (HPY05_02355) fldB 489939..490457 (-) 519 WP_000690112.1 flavodoxin FldB -
  HPY05_RS02360 (HPY05_02360) xerD 490595..491503 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  HPY05_RS02365 (HPY05_02365) dsbC 491520..492272 (+) 753 WP_000115049.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62136.26 Da        Isoelectric Point: 6.0411

>NTDB_id=447693 HPY05_RS02335 WP_175246756.1 485641..487329(-) (pilB) [Vibrio cholerae strain W6G]
MLTNLVAILRQAELISVTQEQAVVEHISASGTSVPEALLGLGIFHPQELTEQLSHIFGLPETDLSRYDYAPLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGIEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=447693 HPY05_RS02335 WP_175246756.1 485641..487329(-) (pilB) [Vibrio cholerae strain W6G]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGTGACGCAAGAACAAGCTGTGGTCGAACACAT
CAGCGCCTCGGGCACTTCCGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACCCCCAGGAACTCACCGAACAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGTTACGACTACGCCCCCCTGTGCCAACAGCTTGGGCTGCGTGAA
CTGATTACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTGCTCGCGGTCTCTGACCCGACCTTACT
GCAAGCCGAAGAAGAGTTTCGTTTTGCCACAGGATTACAAGTTGAACTGGCGCTAGCCGATCACCGCGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCGATTCAAGGCGCCGCCAATCAGGGTAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAGCTGCAATCGATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGCAAAGGCGCCTCCGATATTCATTTTGAGCCTTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGCATTTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCTGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCACAAGATGGCCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAACGCCCTCAAAAGACCGCAAGGGATGATT
TTGATGACAGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCAGAAGATCCGGTGGAAATTAACCTGTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAAATCGCGGTCAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCCACCCTGCACACCAACTCGGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTTGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACATTGCAAAATTGCGGTGCGCCCTTCCGCCCTATTGCAAAGCCAATTTGCGTTTCAGCCCAATGAA
ATCTTATATGAAGCCAATGCGGCGGGGTGTAACGAATGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGTATTGAAAAGCTGCGCGAAGGCATCACCAGTTTTGCCGAACTGCAACGCGTGCTT
TATTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(40-141)


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

98.399

100

0.984
  pilB Vibrio parahaemolyticus RIMD 2210633

73.843

100

0.738
  pilB Vibrio campbellii strain DS40M4

73.665

100

0.737
  pilB Legionella pneumophila strain ERS1305867

53.033

90.925

0.482
  pilB Acinetobacter baylyi ADP1

50.192

92.527

0.464
  pilB Acinetobacter baumannii D1279779

50

92.527

0.463
  pilF Neisseria gonorrhoeae MS11

46.085

100

0.461
  pilF Thermus thermophilus HB27

39.187

96.263

0.377
  pilB/pilB1 Synechocystis sp. PCC 6803

37.818

97.865

0.37
  pilB Haemophilus influenzae 86-028NP

39.279

93.772

0.368