Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPX93_RS10850 Genome accession   NZ_CP046749
Coordinates   2396672..2398360 (+) Length   562 a.a.
NCBI ID   WP_123162949.1    Uniprot ID   -
Organism   Vibrio cholerae strain 2015V-1118     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2391672..2403360
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPX93_RS10820 dsbC 2391824..2392576 (-) 753 WP_123162945.1 bifunctional protein-disulfide isomerase/oxidoreductase DsbC -
  GPX93_RS10825 xerD 2392593..2393501 (-) 909 WP_123162946.1 site-specific tyrosine recombinase XerD -
  GPX93_RS10830 fldB 2393639..2394157 (+) 519 WP_000690112.1 flavodoxin FldB -
  GPX93_RS10835 ampD 2394273..2394818 (-) 546 WP_053033235.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPX93_RS10840 nadC 2395120..2396010 (+) 891 WP_123162947.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPX93_RS10845 pilA 2396255..2396665 (+) 411 WP_123162948.1 pilin Machinery gene
  GPX93_RS10850 pilB 2396672..2398360 (+) 1689 WP_123162949.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPX93_RS10855 pilC 2398403..2399629 (+) 1227 WP_000648506.1 type II secretion system F family protein Machinery gene
  GPX93_RS10860 pilD 2399687..2400562 (+) 876 WP_000418747.1 A24 family peptidase Machinery gene
  GPX93_RS10865 coaE 2400559..2401167 (+) 609 WP_184482901.1 dephospho-CoA kinase -
  GPX93_RS10870 zapD 2401199..2401939 (+) 741 WP_000207194.1 cell division protein ZapD -
  GPX93_RS10875 yacG 2402097..2402294 (+) 198 WP_000162865.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62078.17 Da        Isoelectric Point: 6.2012

>NTDB_id=407108 GPX93_RS10850 WP_123162949.1 2396672..2398360(+) (pilB) [Vibrio cholerae strain 2015V-1118]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGIFHPQELTEQLSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYESQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVYPSVLLQSQFAFQPNE
ILYKANSAGCNECTGGYSGRVGIYEVMAFNTELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLHEGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=407108 GPX93_RS10850 WP_123162949.1 2396672..2398360(+) (pilB) [Vibrio cholerae strain 2015V-1118]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCAACGCAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGGACGTCGGTGCCCGAGGCGCTGCTTGGTTTAGGGATTTTTCACCCCCAAGAGCTGACCGAGCAACTGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACCTGTGCCAACAGCTTGGGCTGCGTGAA
CTGATTACCCGCTACGACGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTGCTCGCCGTCTCTGACCCGACTTTGCT
GCAAGCTGAAGAAGAGTTTCGTTTTGCCACAGGATTACAAGTTGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCGG
CGATTCGCCGTTTGTATGGCCGCTCGATTCAAGGCGCAGCCAACCAAGGGAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAGCTGCAATCCATTGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTACTGCTCGATGCGGTGCGCAAAGGCGCATCCGATATTCATTTTGAGCCGTATGAAAGCCAGTATCGGATCCGCC
TGCGCTGCGATGGCATTTTGGTGGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCCGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCGCAAGACGGGCGGATTAAACTGCGCCTAAGCCGCGATACCGCCAT
TGATATGCGTGTATCCACACTTCCCACTTTATGGGGAGAAAAAATCGTGCTGCGCCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTATCTCAACGCCCTCAAAAGACCGCAAGGGATGATT
TTAATGACCGGCCCCACCGGCAGCGGCAAAACCGTTTCGCTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCAGAAGATCCGGTGGAAATTAACCTGTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTAATGGTCGGCGAAATACGCGATCTGGAAACT
GCAGAAATCGCGGTAAAAGCCGCGCAAACCGGCCACTTGGTGCTTTCCACGCTGCACACCAACTCGGCCGCCGAAACCGT
GATTCGCTTAGCCAATATGGGGGTGGAGCCGTTTAACCTTGCGTCCTCACTCAGTTTAATCATCGCCCAGCGCCTCGCTC
GCCGCTTGTGTAAACACTGCAAAATCGCAGTGTATCCTTCCGTCCTATTGCAAAGCCAATTTGCGTTTCAGCCGAATGAA
ATCTTGTATAAAGCCAATTCAGCAGGGTGCAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATACCGAGCTGGCGGAGGCCATTATGCAGCGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCGAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCACGAAGGCATCACCAGCTTTGCCGAGCTGCAGCGTGTGCTC
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

74.021

100

0.74
  pilB Vibrio campbellii strain DS40M4

73.488

100

0.735
  pilB Legionella pneumophila strain ERS1305867

52.838

90.925

0.48
  pilB Acinetobacter baylyi ADP1

50.192

92.527

0.464
  pilB Acinetobacter baumannii D1279779

50.192

92.527

0.464
  pilF Neisseria gonorrhoeae MS11

45.567

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

37

100

0.395
  pilF Thermus thermophilus HB27

39.668

96.441

0.383
  pilB Haemophilus influenzae 86-028NP

39.658

93.772

0.372
  pilB Haemophilus influenzae Rd KW20

39.279

93.772

0.368

Multiple sequence alignment