Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ECB94_RS06890 Genome accession   NZ_CP033577
Coordinates   1488791..1490482 (+) Length   563 a.a.
NCBI ID   WP_164491468.1    Uniprot ID   -
Organism   Vibrio mediterranei strain 117-T6     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1483791..1495482
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ECB94_RS06870 (ECB94_06880) pdhR 1485308..1486075 (-) 768 WP_006074432.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  ECB94_RS06875 (ECB94_06885) ampD 1486460..1487044 (-) 585 WP_006074431.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ECB94_RS06880 (ECB94_06890) nadC 1487180..1488070 (+) 891 WP_124940288.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ECB94_RS06885 (ECB94_06895) - 1488312..1488791 (+) 480 WP_006074427.1 pilin -
  ECB94_RS06890 (ECB94_06900) pilB 1488791..1490482 (+) 1692 WP_164491468.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ECB94_RS06895 (ECB94_06905) pilC 1490493..1491719 (+) 1227 WP_124940290.1 type II secretion system F family protein Machinery gene
  ECB94_RS06900 (ECB94_06910) pilD 1491762..1492631 (+) 870 WP_124940291.1 prepilin peptidase Machinery gene
  ECB94_RS06905 (ECB94_06915) coaE 1492634..1493242 (+) 609 WP_006074421.1 dephospho-CoA kinase -
  ECB94_RS06910 (ECB94_06920) zapD 1493274..1494014 (+) 741 WP_031494891.1 cell division protein ZapD -
  ECB94_RS06915 (ECB94_06925) yacG 1494036..1494230 (+) 195 WP_006074419.1 DNA gyrase inhibitor YacG -
  ECB94_RS06920 (ECB94_06930) rplS 1494434..1494787 (-) 354 WP_006074418.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62440.68 Da        Isoelectric Point: 5.7827

>NTDB_id=324103 ECB94_RS06890 WP_164491468.1 1488791..1490482(+) (pilB) [Vibrio mediterranei strain 117-T6]
MPSTLPSILRQANAIDETQETALYDLSMLSGCSVPEGATELNLCQAQELVAVLADVFGLPIVSIKDNDYASLCQQLGLRD
IITQYQALPISLRDNVLTVAVSDPTPSQLESDFKFASGLQIELGLANHQDINAAIRKIYGEGQEQWSQQTKELTSHELAN
LVQVNESELEHCDELMLDDSPVSRFIHQILLEAVSKKASDIHFEPYEHQCRIRLRCDGILIEAHQPSIQLSRRLSARLKI
LAKLDIAERRLPQDGRIKLKLSPHSATDIRVSTLPTMWGEKVVLRILDLNSARLDIEQLGYNDTQQALYLQALHKPQGMV
LMTGPTGSGKTVSLYAGLKLLNTPERNISTAEDPIEIHLDGINQVQVNPKIGFGFSAALRTFLRQDPDVVMVGEIRDLDT
AEIAVKAAQTGHLVLSTLHTNSALETITRLQNMGIESFNLVSSLSLIIAQRLARRLCSLCKRPDHLRKDLLRSLDISSCQ
RIYKANDVGCSKCNRGYSGRIGIYEVLVFSNELSAAVLQKASIQDLEVIAVSQGMMTLKQAGLEKLTLGLTSYQELQRVL
YFE

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=324103 ECB94_RS06890 WP_164491468.1 1488791..1490482(+) (pilB) [Vibrio mediterranei strain 117-T6]
ATCCCGTCCACTCTCCCATCTATTTTAAGACAGGCTAACGCCATCGATGAAACGCAAGAAACTGCGTTATATGACCTGTC
CATGTTATCTGGTTGCTCCGTTCCAGAAGGAGCAACTGAGCTCAACCTTTGTCAGGCTCAAGAGCTTGTTGCTGTTCTAG
CCGACGTTTTTGGACTCCCAATAGTATCGATAAAGGACAACGACTATGCGAGTTTGTGCCAACAACTCGGTTTACGGGAC
ATCATAACTCAATACCAAGCCTTACCTATTTCACTGCGCGACAACGTTCTAACCGTTGCGGTCAGCGATCCCACCCCCTC
GCAGTTAGAAAGTGATTTTAAGTTTGCCTCAGGATTACAAATCGAACTGGGTTTGGCTAACCATCAAGACATAAACGCCG
CAATACGCAAAATTTATGGAGAGGGGCAAGAGCAATGGAGCCAACAGACTAAGGAACTCACCTCCCACGAACTGGCAAAC
TTAGTACAAGTGAATGAGAGTGAACTTGAGCATTGCGATGAGCTAATGCTGGATGACTCGCCTGTCAGCCGTTTCATTCA
CCAAATCCTATTAGAAGCCGTCAGCAAGAAAGCGTCCGATATTCATTTTGAGCCATACGAACACCAGTGCCGAATTCGAC
TTCGCTGTGATGGTATTCTTATTGAGGCACATCAGCCATCGATCCAATTAAGCCGCAGACTATCTGCTCGCCTGAAGATT
CTCGCTAAGCTAGATATTGCTGAGCGCCGTCTTCCTCAAGATGGTCGAATCAAACTCAAACTATCACCCCACTCCGCCAC
GGATATCCGTGTATCAACCCTGCCAACCATGTGGGGAGAAAAGGTAGTACTGAGAATTCTCGACCTAAATTCTGCCCGTT
TGGATATCGAGCAATTAGGGTATAACGACACTCAACAAGCTCTTTACTTGCAAGCGTTGCACAAGCCTCAAGGAATGGTG
TTAATGACAGGGCCTACTGGAAGTGGCAAAACCGTCTCTCTCTATGCGGGACTCAAACTTCTTAATACCCCAGAGCGAAA
TATCTCAACTGCCGAAGACCCTATTGAAATACATCTAGATGGGATAAACCAAGTTCAAGTTAACCCTAAGATAGGCTTTG
GTTTTTCTGCAGCCTTGCGCACTTTTTTACGCCAAGATCCGGATGTGGTTATGGTGGGAGAAATACGAGATCTCGACACA
GCAGAGATTGCGGTTAAAGCGGCTCAAACAGGTCATCTAGTTCTGTCAACTTTACACACTAATTCCGCGCTTGAGACCAT
TACACGGCTACAAAATATGGGAATAGAGAGCTTCAACCTCGTGTCTTCACTTTCGCTAATTATCGCGCAGCGGCTCGCTC
GCCGTTTGTGCTCTTTATGTAAGCGCCCAGATCACCTCCGTAAAGATCTGCTCCGCAGTCTCGATATATCCTCCTGCCAG
AGGATTTACAAAGCCAATGATGTTGGTTGTAGCAAATGTAATAGAGGCTATTCGGGTCGTATCGGTATTTACGAAGTGCT
GGTTTTTTCCAACGAGTTAAGCGCCGCCGTTCTTCAGAAAGCCAGTATTCAAGATCTTGAAGTCATCGCTGTGTCACAAG
GAATGATGACACTTAAACAAGCGGGGCTTGAAAAACTCACTCTTGGGCTGACAAGCTACCAAGAACTGCAGCGTGTCCTT
TATTTCGAATGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(40-143)


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

63.54

100

0.638
  pilB Vibrio campbellii strain DS40M4

61.032

99.822

0.609
  pilB Vibrio parahaemolyticus RIMD 2210633

60.568

100

0.606
  pilB Legionella pneumophila strain ERS1305867

45.208

98.224

0.444
  pilB Acinetobacter baumannii D1279779

46.538

92.362

0.43
  pilB Acinetobacter baylyi ADP1

47.337

90.053

0.426
  pilF Neisseria gonorrhoeae MS11

44.208

92.007

0.407
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.116

91.652

0.368
  pilF Thermus thermophilus HB27

38.593

93.428

0.361

Multiple sequence alignment