Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPX86_RS10490 Genome accession   NZ_CP046793
Coordinates   2328488..2330176 (-) Length   562 a.a.
NCBI ID   WP_158144689.1    Uniprot ID   -
Organism   Vibrio metschnikovii strain 9502-00     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2323488..2335176
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPX86_RS10465 yacG 2324576..2324773 (-) 198 WP_158138886.1 DNA gyrase inhibitor YacG -
  GPX86_RS10470 zapD 2324815..2325555 (-) 741 WP_004394266.1 cell division protein ZapD -
  GPX86_RS10475 coaE 2325587..2326195 (-) 609 WP_158138885.1 dephospho-CoA kinase -
  GPX86_RS10480 pilD 2326201..2327067 (-) 867 WP_158144688.1 A24 family peptidase Machinery gene
  GPX86_RS10485 pilC 2327243..2328469 (-) 1227 WP_154170154.1 type II secretion system F family protein Machinery gene
  GPX86_RS10490 pilB 2328488..2330176 (-) 1689 WP_158144689.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPX86_RS10495 - 2330191..2330610 (-) 420 WP_158144690.1 pilin -
  GPX86_RS10500 nadC 2330893..2331783 (-) 891 WP_158144691.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPX86_RS10505 ampD 2331892..2332437 (+) 546 WP_154170162.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPX86_RS10510 fldB 2332434..2332952 (-) 519 WP_154170164.1 flavodoxin FldB -
  GPX86_RS10515 xerD 2333084..2333992 (+) 909 WP_154170166.1 site-specific tyrosine recombinase XerD -
  GPX86_RS10520 - 2334008..2334760 (+) 753 WP_158144692.1 thioredoxin fold domain-containing protein -

Sequence

Protein


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

>NTDB_id=407885 GPX86_RS10490 WP_158144689.1 2328488..2330176(-) (pilB) [Vibrio metschnikovii strain 9502-00]
MLTNLIAILRQAQLLSLTQEKALVEHIQASGASAPEALLDLAIFDSQELSEHISQLFALPLQNLSDYAYPELCQQLGLRE
LIMRYQALPIENNGLVLTLAMADPTHLQAEEEFRFATGLAIEVVLADYKALQGAIRRLYGRSLVGHSAQGKEISQDELAS
LVDISDDEQQQVEDLSQDDSPVSRFINQILLDAVRKGASDIHFEPYESLYRVRLRCDGILVQTQQPASHLGRRLAARIKI
LAKLDIAERRLPQDGRIKLRLNATTAIDMRVSTLPTLWGEKIVLRLLDSSAASLDIDKLGYNEMQKQLYLNALKQPQGMI
LMTGPTGSGKTVSLYTGLSLLNREQVNISTAEDPVEINLPGINQVQVQPKIGFGFAKALRSFLRQDPDIVMVGEIRDVET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLTNMGIEPFNLASSLSLIIAQRLARRLCPNCKVAKQPNVTEQQQFDLSADD
ILYAADPNGCSECTKGYSGRVGIYEVMAFNSQLAEAIMQRASITHIEAIAKANGMQTLQESGIEKLQQGITSIDELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=407885 GPX86_RS10490 WP_158144689.1 2328488..2330176(-) (pilB) [Vibrio metschnikovii strain 9502-00]
ATGCTCACCAATCTCATCGCGATTTTGCGTCAGGCGCAACTACTTAGCCTGACCCAAGAAAAAGCGCTGGTCGAACATAT
CCAAGCTTCTGGCGCTAGCGCGCCGGAAGCTTTGTTGGATTTAGCGATCTTCGATAGTCAAGAGCTGAGTGAACACATCA
GTCAACTGTTCGCACTGCCACTGCAAAACCTCAGCGATTATGCCTACCCAGAGCTGTGCCAACAGCTCGGATTACGTGAG
TTAATCATGCGCTACCAAGCGCTACCGATTGAGAATAATGGCTTGGTACTCACCTTAGCCATGGCCGACCCGACTCATCT
GCAAGCAGAAGAAGAATTTCGCTTTGCCACCGGACTCGCGATTGAAGTGGTGTTGGCAGACTATAAAGCACTACAAGGGG
CTATTCGTCGCTTATACGGACGCTCATTAGTTGGGCATTCTGCGCAAGGCAAAGAGATCAGCCAAGACGAGCTAGCCAGC
TTAGTCGATATTTCTGATGATGAGCAGCAACAAGTCGAGGACCTTAGCCAAGATGACTCTCCAGTTAGCCGATTTATCAA
CCAAATCTTGCTTGATGCGGTGCGTAAAGGCGCGTCCGATATTCACTTTGAACCTTACGAGTCCCTTTATCGAGTTCGCT
TACGCTGTGATGGTATTTTGGTGCAAACCCAACAACCCGCCAGCCATTTAGGCCGCCGGCTAGCGGCGCGAATTAAAATT
TTAGCGAAACTGGATATCGCCGAGCGGCGCTTGCCACAAGACGGGCGAATTAAACTGCGCCTCAATGCCACCACCGCGAT
TGATATGCGCGTTTCCACCTTACCCACCTTATGGGGAGAAAAAATTGTCCTACGTTTACTCGATAGCAGCGCCGCAAGTT
TAGATATTGACAAATTAGGCTACAACGAGATGCAAAAACAGCTCTATCTCAATGCTCTCAAACAGCCACAAGGGATGATT
TTGATGACTGGCCCAACCGGCAGCGGCAAAACCGTTTCCCTTTATACTGGGCTGAGTTTATTAAATCGTGAGCAGGTGAA
TATTTCTACCGCCGAAGATCCCGTCGAAATCAATCTCCCCGGCATCAATCAGGTACAAGTGCAACCGAAAATCGGTTTTG
GCTTTGCTAAAGCGCTGCGTTCTTTTTTACGCCAAGATCCGGACATTGTTATGGTCGGTGAAATCCGTGATGTCGAGACC
GCTGAAATTGCCGTTAAAGCTGCTCAAACCGGGCATTTAGTGCTCTCCACGTTACACACTAACTCAGCAGCAGAGACCGT
GATTCGCCTGACTAATATGGGCATTGAACCTTTTAATCTCGCTTCTTCATTAAGCTTAATCATCGCTCAGCGCTTAGCAC
GCCGTTTATGTCCGAACTGTAAAGTCGCCAAACAACCAAACGTAACGGAACAACAGCAGTTTGACTTATCAGCCGATGAC
ATTCTCTACGCGGCGGATCCGAACGGTTGCAGTGAATGCACCAAAGGCTACAGTGGCCGAGTCGGCATTTATGAAGTGAT
GGCGTTTAATAGCCAATTAGCTGAAGCGATCATGCAGCGCGCTTCCATTACTCATATCGAAGCCATTGCTAAAGCTAATG
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)

(41-141)


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

79.359

100

0.794
  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

50

93.95

0.47
  pilB Acinetobacter baumannii D1279779

50.096

92.349

0.463
  pilB Acinetobacter baylyi ADP1

49.031

91.815

0.45
  pilF Neisseria gonorrhoeae MS11

44.326

100

0.445
  pilB/pilB1 Synechocystis sp. PCC 6803

37.896

100

0.404
  pilF Thermus thermophilus HB27

38.858

96.619

0.375

Multiple sequence alignment