Detailed information    

experimental Experimentally validated

Overview

Name   pilB   Type   Machinery gene
Locus tag   A1552VC_RS11070 Genome accession   NZ_CP028894
Coordinates   2373767..2375455 (+) Length   562 a.a.
NCBI ID   WP_000957200.1    Uniprot ID   A0A0H3AHY8
Organism   Vibrio cholerae strain A1552     
Function   assembly of type IV pilus   
DNA binding and uptake

Function

Both traffic ATPases, PilB and PilT, were required for DNA uptake and efficient transformation of V. cholerae.


Genomic Context

Location: 2368767..2380455
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A1552VC_RS11045 (A1552VC_02182) xerD 2369488..2370396 (-) 909 WP_001287472.1 site-specific tyrosine recombinase XerD -
  A1552VC_RS11050 (A1552VC_02183) fldB 2370534..2371052 (+) 519 WP_000690112.1 flavodoxin FldB -
  A1552VC_RS11055 (A1552VC_02184) ampD 2371330..2371875 (-) 546 WP_000567318.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  A1552VC_RS11060 (A1552VC_02185) nadC 2372171..2373061 (+) 891 WP_000665274.1 carboxylating nicotinate-nucleotide diphosphorylase -
  A1552VC_RS11065 (A1552VC_02186) pilA 2373306..2373767 (+) 462 WP_000649326.1 pilin Machinery gene
  A1552VC_RS11070 (A1552VC_02187) pilB 2373767..2375455 (+) 1689 WP_000957200.1 type IV-A pilus assembly ATPase PilB Machinery gene
  A1552VC_RS11075 (A1552VC_02188) pilC 2375498..2376724 (+) 1227 WP_000648511.1 type II secretion system F family protein Machinery gene
  A1552VC_RS11080 (A1552VC_02189) pilD 2376782..2377657 (+) 876 WP_000418747.1 A24 family peptidase Machinery gene
  A1552VC_RS11085 (A1552VC_02190) coaE 2377654..2378262 (+) 609 WP_000011557.1 dephospho-CoA kinase -
  A1552VC_RS11090 (A1552VC_02191) zapD 2378294..2379034 (+) 741 WP_000207198.1 cell division protein ZapD -
  A1552VC_RS11095 (A1552VC_02192) yacG 2379176..2379373 (+) 198 WP_000162868.1 DNA gyrase inhibitor YacG -

Regulatory network

Positive effect      
Negative effect
Regulator Target Regulation
  tfoX pilB positive effect
  tfoX pilO positive effect
  tfoX pilP positive effect
  tfoX pilA positive effect
  tfoX pilD positive effect
  tfoX dprA positive effect
  tfoX pilM positive effect
  tfoX pilN positive effect
  tfoX comEA positive effect
  hapR comEA positive effect
  crp comEA positive effect
  qstR comEA positive effect
  tfoX pilQ positive effect
  tfoX qstR positive effect
  qstR comEC positive effect
  qstR comF positive effect
  qstR comM positive effect
  crp qstR positive effect
  hapR qstR positive effect
  tfoX comEC positive effect
  hapR comEC positive effect
  tfoX pilC positive effect
  chiS tfoX positive effect
  hapR dns negative effect

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62150.20 Da        Isoelectric Point: 5.9053

>NTDB_id=1168 A1552VC_RS11070 WP_000957200.1 2373767..2375455(+) (pilB) [Vibrio cholerae strain A1552]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLELSIFHAQELTEQLSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=1168 A1552VC_RS11070 WP_000957200.1 2373767..2375455(+) (pilB) [Vibrio cholerae strain A1552]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCAACGCAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGGACTTCGGTGCCCGAGGCGCTGCTTGAGTTAAGTATTTTTCACGCCCAAGAACTGACCGAACAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGCCAACAGCTCGGGCTGCGTGAA
CTGATTACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTGCTTGCGGTCTCTGACCCGACCTTACT
GCAAGCCGAAGAAGAATTTCGTTTTGCCACAGGATTACAAGTTGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCAATTCAAGGCGCAGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGACGACGAGCTGCAATCCATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTACGTAAAGGTGCCTCGGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGCATCTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCTGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCGCAAGACGGGCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTTTCGACACTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAACTCTACCTCAACGCCCTGAAAAGACCGCAAGGAATGATT
TTAATGACCGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCGGAAGATCCGGTAGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCGGATGTGGTGATGGTCGGCGAAATCCGCGATCTGGAAACC
GCAGAAATCGCGGTCAAAGCCGCGCAAACCGGTCACTTAGTGCTTTCCACCCTGCACACCAATTCGGCCGCTGAAACCGT
AATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAACCTCGCGTCCTCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCCTATGTAAACACTGCAAAATCGCGGTGCGCCCTTCTGCCCTATTGCAAAGCCAATTTGCATTTCAACCCAATGAA
ATCTTGTATGAAGCGAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGTCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
TACTTTTAA

Domains

Predicted by InterproScan.

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

(38-141)

Type II/IV secretion system protein (T2SSE)

(188-455)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A0H3AHY8

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 parahaemolyticus RIMD 2210633

73.665

100

0.738
  pilB Vibrio campbellii strain DS40M4

73.488

100

0.736
  pilB Legionella pneumophila strain ERS1305867

50.741

96.085

0.488
  pilB Acinetobacter baylyi ADP1

50.484

91.993

0.464
  pilB Acinetobacter baumannii D1279779

50.29

91.993

0.463
  pilF Neisseria gonorrhoeae MS11

45.374

100

0.457
  pilB Haemophilus influenzae 86-028NP

39.658

100

0.45
  pilB Haemophilus influenzae Rd KW20

39.279

100

0.446
  pilB Glaesserella parasuis strain SC1401

38.2

100

0.414
  pilB/pilB1 Synechocystis sp. PCC 6803

36.65

100

0.393
  pilF Thermus thermophilus HB27

40.111

96.263

0.386

Multiple sequence alignment    



References

[1] Patrick Seitz et al. (2013) DNA-uptake machinery of naturally competent Vibrio cholerae. Proceedings of The National Academy of Sciences of The United States of America 110(44):17987-92. [PMID: 24127573]
[2] Mirella Lo Scrudato et al. (2012) The regulatory network of natural competence and transformation of Vibrio cholerae. PLoS Genetics 8(6):e1002778. [PMID: 22737089]
[3] Karin L Meibom et al. (2005) Chitin induces natural competence in Vibrio cholerae. Science (New York, N.Y.) 310(5755):1824-7. [PMID: 16357262]
[4] K J Fullner et al. (1999) Genetic characterization of a new type IV-A pilus gene cluster found in both classical and El Tor biotypes of Vibrio cholerae. Infection And Immunity 67(3):1393-404. [PMID: 10024587]