Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPX85_RS15880 Genome accession   NZ_CP046822
Coordinates   2640328..2642016 (+) Length   562 a.a.
NCBI ID   WP_158138883.1    Uniprot ID   -
Organism   Vibrio metschnikovii strain 07-2421     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2635328..2647016
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPX85_RS15850 - 2635686..2636438 (-) 753 WP_158138880.1 thioredoxin fold domain-containing protein -
  GPX85_RS15855 xerD 2636454..2637308 (-) 855 WP_233268213.1 site-specific tyrosine recombinase XerD -
  GPX85_RS15860 fldB 2637494..2638012 (+) 519 WP_154170164.1 flavodoxin FldB -
  GPX85_RS15865 ampD 2638009..2638554 (-) 546 WP_154170162.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPX85_RS15870 nadC 2638663..2639553 (+) 891 WP_158138881.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPX85_RS15875 - 2639837..2640289 (+) 453 WP_158138882.1 pilin -
  GPX85_RS15880 pilB 2640328..2642016 (+) 1689 WP_158138883.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPX85_RS15885 pilC 2642035..2643261 (+) 1227 WP_154170154.1 type II secretion system F family protein Machinery gene
  GPX85_RS15890 pilD 2643437..2644303 (+) 867 WP_158138884.1 prepilin peptidase Machinery gene
  GPX85_RS15895 coaE 2644309..2644917 (+) 609 WP_158138885.1 dephospho-CoA kinase -
  GPX85_RS15900 zapD 2644949..2645689 (+) 741 WP_004394266.1 cell division protein ZapD -
  GPX85_RS15905 yacG 2645731..2645928 (+) 198 WP_158138886.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62009.10 Da        Isoelectric Point: 5.0074

>NTDB_id=408423 GPX85_RS15880 WP_158138883.1 2640328..2642016(+) (pilB) [Vibrio metschnikovii strain 07-2421]
MLTNLIAILRQAQLLSLTQEKALVEHIQASGASAPEALLDLAIFDSQELSEHISQLFALPIQNLSDYAYPELCQQLGLRE
LIMRYQALPIENNGLVLTLAMADPTHLQAEEEFRFATGLAIEVVLADYKVLQGAIRRLYGRSLAGHSAQGKEISQDELAS
LVDISDDEQQQVEDLSQDDSPVSRFINQILLDAVRKGASDIHFEPYESLYRVRLRCDGILVQTQQPASHLGRRLAARIKI
LAKLDIAERRLPQDGRIKLRLNATTAIDMRVSTLPTLWGEKIVLRLLDSSAASLDIDKLGYNEMQKQLYLNALKQPQGMI
LMTGPTGSGKTVSLYTGLSLLNREQVNISTAEDPVEINLPGINQVQVQPKIGFGFAKALRSFLRQDPDIVMVGEIRDVET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLTNMGIEPFNLASSLSLIIAQRLARRLCPNCKVAKQPNVTEQQQFDLSADD
ILYAADPNGCSECTKGYSGRVGIYEVMAFNSQLAEAIMQRASITHIEAIAKANGMQTLQESGIEKLQQGITSIDELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=408423 GPX85_RS15880 WP_158138883.1 2640328..2642016(+) (pilB) [Vibrio metschnikovii strain 07-2421]
ATGCTCACCAATCTCATCGCGATTTTGCGTCAGGCGCAACTACTTAGCCTGACCCAAGAAAAAGCGCTGGTCGAACATAT
CCAAGCTTCTGGCGCTAGCGCGCCGGAAGCTTTGTTGGATTTAGCGATCTTCGATAGCCAAGAGCTGAGCGAACACATCA
GTCAGCTGTTCGCACTGCCGATCCAAAACCTCAGCGATTATGCCTACCCAGAGCTGTGCCAACAGCTCGGATTACGTGAG
TTAATCATGCGCTACCAAGCGCTACCGATTGAGAATAATGGCTTGGTACTCACCTTAGCCATGGCCGACCCGACTCATCT
GCAAGCAGAAGAAGAATTTCGCTTTGCCACCGGACTCGCGATTGAAGTGGTGTTGGCAGACTATAAAGTACTACAAGGGG
CTATTCGCCGCTTATACGGACGCTCATTAGCTGGACATTCTGCGCAAGGCAAAGAGATCAGCCAAGACGAGCTAGCCAGC
TTAGTCGATATTTCTGATGATGAGCAGCAACAAGTCGAGGATCTTAGCCAAGATGACTCTCCAGTTAGCCGATTTATTAA
CCAAATCTTGCTTGATGCGGTGCGTAAAGGCGCGTCCGATATTCACTTTGAACCTTACGAGTCCCTTTATCGAGTTCGCT
TACGCTGTGATGGTATTTTGGTGCAAACCCAACAACCCGCCAGCCATTTAGGCCGCCGGCTAGCGGCGCGAATTAAAATT
TTAGCGAAACTGGATATCGCCGAGCGGCGCTTGCCACAAGACGGGCGAATTAAACTGCGCCTCAATGCCACCACCGCGAT
TGATATGCGCGTTTCCACCTTACCCACCTTATGGGGAGAAAAAATTGTCCTACGTTTACTCGATAGCAGCGCCGCCAGTT
TAGATATTGACAAATTAGGCTACAACGAGATGCAAAAACAGCTCTATCTCAATGCTCTCAAACAGCCACAAGGGATGATT
TTGATGACTGGCCCAACCGGCAGCGGCAAAACCGTTTCCCTTTATACTGGGCTGAGTTTATTAAATCGTGAGCAGGTGAA
TATTTCTACCGCCGAAGATCCCGTCGAAATCAATCTCCCCGGCATCAATCAGGTACAAGTGCAACCGAAAATCGGTTTTG
GCTTTGCTAAAGCGCTGCGTTCTTTTTTACGCCAAGATCCGGACATTGTTATGGTCGGTGAAATCCGTGATGTCGAGACC
GCTGAAATTGCCGTTAAAGCTGCTCAAACCGGGCATTTAGTGCTCTCCACGTTACACACTAACTCAGCAGCAGAGACCGT
GATTCGCCTGACTAATATGGGCATTGAACCTTTTAATCTCGCTTCTTCATTAAGCTTAATCATCGCTCAGCGCTTAGCAC
GCCGTTTATGTCCGAACTGTAAAGTCGCCAAACAACCAAACGTAACGGAACAACAGCAGTTTGACTTATCAGCCGATGAC
ATTCTCTACGCGGCGGATCCGAACGGTTGCAGTGAATGCACCAAAGGCTACAGTGGCCGAGTCGGCATTTATGAAGTGAT
GGCGTTTAATAGCCAATTAGCTGAAGCGATCATGCAGCGCGCTTCGATTACTCATATCGAAGCCATTGCTAAAGCTAATG
GTATGCAAACTTTACAAGAATCTGGAATAGAAAAACTCCAACAGGGGATCACCAGCATTGACGAGCTGCAGCGTGTTCTT
TACTTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(41-142)


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

79.181

100

0.792
  pilB Vibrio parahaemolyticus RIMD 2210633

71.174

100

0.712
  pilB Vibrio campbellii strain DS40M4

70.996

100

0.71
  pilB Legionella pneumophila strain ERS1305867

49.811

93.95

0.468
  pilB Acinetobacter baumannii D1279779

50.289

92.349

0.464
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB Acinetobacter baylyi ADP1

48.643

91.815

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

37.896

100

0.404
  pilF Thermus thermophilus HB27

39.187

96.263

0.377

Multiple sequence alignment