Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LY388_RS07800 Genome accession   NZ_CP090387
Coordinates   482761..484449 (-) Length   562 a.a.
NCBI ID   WP_057563243.1    Uniprot ID   -
Organism   Vibrio cholerae strain GXFL1-4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 477761..489449
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LY388_RS07775 (LY388_07775) yacG 478817..479014 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  LY388_RS07780 (LY388_07780) zapD 479172..479912 (-) 741 WP_000207194.1 cell division protein ZapD -
  LY388_RS07785 (LY388_07785) coaE 479944..480552 (-) 609 WP_000011553.1 dephospho-CoA kinase -
  LY388_RS07790 (LY388_07790) pilD 480549..481424 (-) 876 WP_000418748.1 A24 family peptidase Machinery gene
  LY388_RS07795 (LY388_07795) pilC 481482..482708 (-) 1227 WP_148504744.1 type II secretion system F family protein Machinery gene
  LY388_RS07800 (LY388_07800) pilB 482761..484449 (-) 1689 WP_057563243.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LY388_RS07805 (LY388_07805) pilA 484451..484882 (-) 432 WP_057563244.1 pilin Machinery gene
  LY388_RS07810 (LY388_07810) nadC 485127..486017 (-) 891 WP_000665277.1 carboxylating nicotinate-nucleotide diphosphorylase -
  LY388_RS07815 (LY388_07815) ampD 486319..486864 (+) 546 WP_000567314.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  LY388_RS07820 (LY388_07820) fldB 487013..487531 (-) 519 WP_000690112.1 flavodoxin FldB -
  LY388_RS07825 (LY388_07825) xerD 487669..488577 (+) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  LY388_RS07830 (LY388_07830) dsbC 488594..489346 (+) 753 WP_000115052.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62031.12 Da        Isoelectric Point: 6.0856

>NTDB_id=641919 LY388_RS07800 WP_057563243.1 482761..484449(-) (pilB) [Vibrio cholerae strain GXFL1-4]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHAQELTEQLSHIFGLPETDLSRYDYAPLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGIEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=641919 LY388_RS07800 WP_057563243.1 482761..484449(-) (pilB) [Vibrio cholerae strain GXFL1-4]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCAACGCAAGAACAAGCGGTGGTTACGCAGGT
TAGCGCCTCGGGAACTTCGGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACGCCCAAGAGCTGACCGAGCAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGTTACGACTACGCCCCCCTGTGCCAACAGCTTGGGCTGCGTGAA
CTGATTACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTACTCGCGGTCTCTGACCCAACCTTACT
GCAAGCCGAAGAAGAGTTTCGTTTTGCCACAGGATTACAAGTTGAACTGGCACTGGCCGATCACCGCGCACTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCAATTCAAGGCGCAGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAGCTGCAATCCATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGCAAAGGCGCCTCCGATATTCATTTTGAGCCTTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGCATTTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCTGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCACAAGATGGCCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACGCTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAACGCCCTCAAAAGACCGCAAGGGATGATT
TTGATGACAGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCAGAAGATCCGGTGGAAATTAACCTGTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAAATCGCGGTCAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCCACCCTGCACACCAACTCGGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTTGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACATTGCAAAATTGCGGTGCGCCCTTCCGCCCTATTGCAAAGCCAATTTGCGTTTCAGCCCAATGAA
ATCTTATATGAAGCCAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
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)

(41-141)


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

99.288

100

0.993
  pilB Vibrio parahaemolyticus RIMD 2210633

74.021

100

0.74
  pilB Vibrio campbellii strain DS40M4

73.843

100

0.738
  pilB Legionella pneumophila strain ERS1305867

52

93.416

0.486
  pilB Acinetobacter baylyi ADP1

50.29

91.993

0.463
  pilB Acinetobacter baumannii D1279779

50.097

91.993

0.461
  pilF Neisseria gonorrhoeae MS11

45.73

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

37.252

100

0.4
  pilF Thermus thermophilus HB27

40.481

96.263

0.39
  pilB Haemophilus influenzae 86-028NP

39.279

93.772

0.368