Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   MID13_RS12835 Genome accession   NZ_CP092384
Coordinates   2897436..2899121 (+) Length   561 a.a.
NCBI ID   WP_239716628.1    Uniprot ID   -
Organism   Vibrio gigantis strain ACE001     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2892436..2904121
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  MID13_RS12815 (MID13_12815) pdhR 2893951..2894712 (-) 762 WP_009847596.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  MID13_RS12820 (MID13_12820) ampD 2895196..2895795 (-) 600 WP_239716624.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  MID13_RS12825 (MID13_12825) nadC 2895879..2896769 (+) 891 WP_239716626.1 carboxylating nicotinate-nucleotide diphosphorylase -
  MID13_RS12830 (MID13_12830) pilA 2897023..2897430 (+) 408 WP_215404157.1 pilin Machinery gene
  MID13_RS12835 (MID13_12835) pilB 2897436..2899121 (+) 1686 WP_239716628.1 type IV-A pilus assembly ATPase PilB Machinery gene
  MID13_RS12840 (MID13_12840) pilC 2899137..2900366 (+) 1230 WP_239716630.1 type II secretion system F family protein Machinery gene
  MID13_RS12845 (MID13_12845) pilD 2900434..2901303 (+) 870 WP_239716632.1 prepilin peptidase Machinery gene
  MID13_RS12850 (MID13_12850) coaE 2901306..2901920 (+) 615 WP_239716634.1 dephospho-CoA kinase -
  MID13_RS12855 (MID13_12855) zapD 2901947..2902687 (+) 741 WP_239716636.1 cell division protein ZapD -
  MID13_RS12860 (MID13_12860) yacG 2902768..2902965 (+) 198 WP_019823814.1 DNA gyrase inhibitor YacG -
  MID13_RS12865 (MID13_12865) rplS 2903267..2903620 (-) 354 WP_004735514.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62317.10 Da        Isoelectric Point: 5.2094

>NTDB_id=657091 MID13_RS12835 WP_239716628.1 2897436..2899121(+) (pilB) [Vibrio gigantis strain ACE001]
MLTNLPTVLRQANLLSLTQEQAVAEHIQASGVSTPEALLVLDFFTGDSLANNIKTIFGLPLVQLSKIDYETLCDQLGLRE
LITKHRAIPISVSNSTLTLASADPTDLQAEDDFRFATGLQIELVIANYSELEGAIRKLYGRSISGQDSKRKEITQDELAN
LVEVSDDEMTSIEDLSQDDSPVSRFINQILVDAVRKGASDIHFEPYEEHYRVRLRCDGILVEIQQPASHLSRRLSARLKI
LAKLDIAERRLPQDGRIKLRLNDELAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYSEDQKAFYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRVLNTTERNISTAEDPVEINLCGINQVQVTPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAIKASQTGHLVLSTLHTNSAAETVTRLAHMGIEPFNLASSLSLIIAQRLARRLCNQCKTVDDSPDIFLRHSIPNSQT
IYKANPQGCNECNQGYSGRVGIYEVMPFTDKLKSSLINKPNARAIEDLARREGMRTLQESGLDKLLEGTTSYQELQRVLY
I

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=657091 MID13_RS12835 WP_239716628.1 2897436..2899121(+) (pilB) [Vibrio gigantis strain ACE001]
ATGCTAACCAACCTCCCAACCGTTCTTCGTCAGGCTAACTTACTTAGCCTGACTCAAGAACAAGCCGTTGCGGAACACAT
ACAAGCTTCAGGTGTCTCTACACCTGAAGCTTTACTCGTTCTAGATTTCTTCACCGGCGACTCTTTAGCAAACAATATTA
AAACCATCTTCGGTTTACCGTTAGTACAACTTTCCAAGATTGACTATGAGACCTTATGTGACCAATTAGGGCTTCGCGAA
CTGATTACCAAGCATCGTGCTATCCCTATTTCAGTCTCTAACTCTACTCTCACACTCGCCTCAGCCGACCCGACCGATTT
ACAAGCTGAAGATGATTTCCGATTCGCGACTGGATTGCAGATAGAACTCGTTATCGCTAACTACTCTGAGTTAGAAGGTG
CAATACGAAAGCTATATGGCCGCTCCATTTCCGGGCAAGATTCTAAACGCAAAGAGATCACCCAAGATGAACTCGCCAAT
CTCGTTGAAGTCTCTGACGATGAGATGACTTCAATTGAAGATCTCAGCCAAGACGACTCTCCAGTTAGCCGGTTTATCAA
TCAAATACTGGTTGATGCGGTGCGTAAGGGTGCATCAGATATTCATTTTGAACCTTACGAAGAGCACTATCGCGTGCGCC
TGCGTTGCGATGGCATCCTTGTCGAGATTCAGCAACCCGCCTCTCATTTAAGTCGTCGGTTATCTGCTCGCTTGAAGATT
CTCGCCAAGCTTGATATTGCCGAACGTCGCTTACCCCAAGATGGACGCATTAAGCTCCGTTTGAATGATGAACTCGCGAT
TGATATGCGCGTATCAACGCTACCGACTTTGTGGGGGGAAAAGATCGTACTGAGGCTGCTCGATAGCAGCGCGGCCAATC
TCGATATCGACAAGCTTGGCTACAGTGAAGATCAAAAAGCCTTCTACCTTAATGCCTTGAAACGCCCACAAGGTATGATC
TTAATGACTGGGCCAACCGGCAGTGGCAAAACTGTGTCTCTTTATACTGGGCTTCGCGTTCTTAACACCACTGAGCGCAA
TATTTCTACAGCTGAAGACCCTGTGGAGATTAACCTGTGTGGTATCAATCAAGTACAGGTAACGCCAAAGATCGGTTTCG
GATTCGCTGAAGCACTGCGCTCGTTTTTACGACAAGATCCCGATGTGGTGATGGTCGGTGAGATCCGAGATTTAGAAACT
GCAGAGATCGCTATCAAAGCATCGCAAACGGGTCACTTGGTGCTTTCGACTCTTCATACTAACTCTGCAGCAGAAACGGT
GACCCGACTCGCTCATATGGGGATTGAGCCCTTTAATCTAGCCTCATCATTGAGCTTAATCATTGCCCAACGACTAGCAA
GACGCTTGTGCAATCAATGCAAAACCGTTGACGACTCACCAGACATCTTTCTGCGTCACTCAATCCCTAACAGCCAAACC
ATCTATAAAGCCAACCCTCAAGGGTGTAATGAGTGCAATCAAGGCTATTCAGGTCGAGTCGGTATCTATGAAGTGATGCC
TTTTACCGACAAACTCAAAAGCAGCCTTATCAATAAACCCAATGCGCGAGCAATTGAAGACCTTGCGCGTCGAGAAGGCA
TGCGAACACTGCAAGAGTCAGGTCTGGATAAATTGCTTGAAGGCACCACCAGCTATCAAGAACTGCAACGTGTTCTGTAC
ATATAA

Domains

Predicted by InterproScan.

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

(43-141)

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

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

73.05

100

0.734
  pilB Vibrio parahaemolyticus RIMD 2210633

70.463

100

0.706
  pilB Vibrio campbellii strain DS40M4

70.107

100

0.702
  pilB Acinetobacter baumannii D1279779

51.445

92.513

0.476
  pilB Legionella pneumophila strain ERS1305867

50.784

90.909

0.462
  pilB Acinetobacter baylyi ADP1

49.331

93.226

0.46
  pilF Neisseria gonorrhoeae MS11

43.784

98.93

0.433