Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EWA66_RS06670 Genome accession   NZ_CP035680
Coordinates   1396844..1398532 (-) Length   562 a.a.
NCBI ID   WP_039439517.1    Uniprot ID   -
Organism   Vibrio navarrensis strain 08-2462     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1391844..1403532
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EWA66_RS06640 rplS 1392278..1392631 (+) 354 WP_039430454.1 50S ribosomal protein L19 -
  EWA66_RS06645 yacG 1392924..1393118 (-) 195 WP_039430453.1 DNA gyrase inhibitor YacG -
  EWA66_RS06650 zapD 1393203..1393943 (-) 741 WP_039430452.1 cell division protein ZapD -
  EWA66_RS06655 coaE 1393976..1394584 (-) 609 WP_039439514.1 dephospho-CoA kinase -
  EWA66_RS06660 pilD 1394586..1395455 (-) 870 WP_039439602.1 prepilin peptidase Machinery gene
  EWA66_RS06665 pilC 1395595..1396821 (-) 1227 WP_039439516.1 type II secretion system F family protein Machinery gene
  EWA66_RS06670 pilB 1396844..1398532 (-) 1689 WP_039439517.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EWA66_RS06675 pilA 1398533..1398988 (-) 456 WP_039439519.1 pilin Machinery gene
  EWA66_RS06680 nadC 1399204..1400091 (-) 888 WP_039439520.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EWA66_RS06685 ampD 1400184..1400747 (+) 564 WP_039439522.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  EWA66_RS06690 pdhR 1401157..1401927 (+) 771 WP_039430445.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62203.33 Da        Isoelectric Point: 6.2970

>NTDB_id=343560 EWA66_RS06670 WP_039439517.1 1396844..1398532(-) (pilB) [Vibrio navarrensis strain 08-2462]
MQTSLITILRQASLLSPTQEQACLEHLNASGASAPEVLLQLGFFQAEELTEHLSALFGLPPVELSHYDYQSVCNQLGLRE
LITRHQALPLQKNRSALILASADPTNLQAEDDFRFATGLQVEMVLAEFKQLQGAIRRLYGRTLSQDNRSGLKEIHQDELA
NLVDVAADEVDNIEDLSQDSSPVSRFINQILLDAVRKGASDIHFEPYEAMYRVRLRCDGILVEVQQPPSHLSRRLSARLK
ILAKLDIAERRLPQDGRIKLKLNQSTAIDMRVSTLPTLFGEKIVLRLLDSSSSNLDIDKLGYSETQKQLYLNALRKPQGM
ILMTGPTGSGKTVSLYTGLNLLNRPEVNISTAEDPVEINLPGINQVQVQPKIGFGFAQALRSFLRQDPDIVMVGEIRDLE
TAEIAIKAAQTGHLVLSTLHTNSAAETIVRLSNMGIASFNLASSLSLIIAQRLARRLCRHCKQPQHLSPALQELGLSQQD
GLYRANPQGCNECNQGYSGRVGIYEVMPFDDAMAEALIKGASVQSLEMLARKNGMLTLRESGLEKVKQGITSIEELQRVL
YL

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=343560 EWA66_RS06670 WP_039439517.1 1396844..1398532(-) (pilB) [Vibrio navarrensis strain 08-2462]
ATGCAAACCAGCCTAATCACGATTCTGCGCCAAGCTAGTCTACTTAGCCCAACGCAAGAGCAAGCTTGTTTGGAACATCT
CAACGCTTCCGGTGCCAGTGCACCGGAGGTGTTGTTGCAACTGGGCTTTTTCCAAGCCGAAGAACTGACCGAACATCTCA
GCGCGCTGTTTGGTTTGCCGCCCGTCGAGCTTAGCCACTATGACTACCAAAGCGTGTGCAACCAACTGGGTTTGCGCGAG
CTGATTACCCGCCACCAAGCCCTGCCGCTACAAAAAAATCGCTCAGCGCTGATTCTCGCCAGTGCCGACCCAACCAATTT
ACAGGCCGAAGATGACTTTCGCTTTGCCACAGGGCTGCAAGTGGAAATGGTGTTGGCCGAATTTAAGCAGTTGCAAGGGG
CGATACGTCGCCTATATGGCCGCACCCTTTCTCAAGATAACCGCTCAGGACTAAAAGAGATCCACCAAGATGAGCTGGCC
AACTTAGTCGATGTGGCAGCCGATGAAGTCGACAATATTGAAGATCTCAGCCAAGACAGCTCCCCCGTCAGCCGTTTTAT
CAACCAGATCTTACTCGATGCGGTGCGTAAAGGCGCATCCGATATTCACTTTGAACCCTATGAAGCGATGTATCGCGTGC
GTTTGCGCTGCGATGGTATTTTGGTCGAAGTGCAGCAGCCACCGAGCCATTTGAGCCGTCGACTCTCTGCACGACTTAAG
ATTCTCGCCAAGCTGGATATTGCCGAGCGGCGTCTACCGCAAGATGGCCGCATAAAACTCAAGCTGAACCAAAGCACCGC
GATTGATATGCGCGTTTCTACCCTACCGACGCTGTTTGGCGAAAAAATCGTTCTGCGCCTGCTCGACAGTTCCAGCAGCA
ACTTAGACATTGATAAACTCGGCTACAGCGAAACGCAAAAGCAGCTCTATCTCAACGCACTGCGCAAACCGCAAGGGATG
ATCTTGATGACGGGCCCAACCGGCAGTGGCAAAACCGTTTCACTCTACACAGGCTTAAACCTACTCAATCGCCCTGAGGT
CAACATCTCTACCGCCGAAGATCCGGTTGAGATTAACTTGCCCGGCATTAACCAAGTGCAAGTACAGCCAAAAATCGGCT
TTGGTTTTGCACAGGCGCTGCGCTCATTTTTACGCCAAGACCCCGATATTGTCATGGTCGGTGAAATTCGCGATTTGGAA
ACCGCCGAAATAGCCATTAAAGCCGCGCAAACGGGGCATTTGGTGCTATCCACCCTACATACCAACTCGGCCGCAGAGAC
CATAGTACGCCTATCAAACATGGGCATTGCCAGCTTCAACCTCGCTTCTTCATTGAGCTTAATTATCGCTCAGCGCTTAG
CCCGTCGTTTGTGTCGCCATTGCAAACAGCCACAACACCTTTCACCAGCATTACAAGAGCTAGGGTTAAGCCAGCAGGAT
GGGTTGTATCGTGCCAATCCTCAAGGGTGTAACGAATGCAATCAAGGGTATTCAGGGCGCGTCGGCATCTACGAAGTGAT
GCCCTTTGACGATGCCATGGCCGAGGCACTAATTAAAGGAGCCTCAGTACAAAGCTTGGAAATGCTCGCCAGAAAAAATG
GCATGCTGACGCTTCGAGAATCTGGGCTAGAAAAGGTCAAGCAAGGCATCACCAGCATTGAAGAGCTGCAACGCGTGCTC
TACCTGTAA

Domains

Predicted by InterproScan.

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

(38-142)

Type II/IV secretion system protein (T2SSE)

(189-456)


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 parahaemolyticus RIMD 2210633

78.114

100

0.781
  pilB Vibrio campbellii strain DS40M4

76.69

100

0.767
  pilB Vibrio cholerae strain A1552

72.647

100

0.728
  pilB Acinetobacter baumannii D1279779

52.907

91.815

0.486
  pilB Legionella pneumophila strain ERS1305867

51.613

93.772

0.484
  pilB Acinetobacter baylyi ADP1

51.163

91.815

0.47
  pilF Neisseria gonorrhoeae MS11

45.951

100

0.464
  pilB/pilB1 Synechocystis sp. PCC 6803

38.245

100

0.411
  pilF Thermus thermophilus HB27

38.503

99.822

0.384
  pilB Haemophilus influenzae Rd KW20

43.182

86.121

0.372
  pilB Haemophilus influenzae 86-028NP

42.828

86.833

0.372
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.477

98.754

0.37

Multiple sequence alignment