Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OO986_RS03105 Genome accession   NZ_AP026552
Coordinates   640585..642273 (-) Length   562 a.a.
NCBI ID   WP_108695083.1    Uniprot ID   -
Organism   Vibrio vulnificus strain VV20-8B-2 isolate homogenised shrimp     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 635585..647273
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OO986_RS03075 (VV208B2_05390) rplS 636129..636482 (+) 354 WP_011079544.1 50S ribosomal protein L19 -
  OO986_RS03080 (VV208B2_05400) yacG 636707..636901 (-) 195 WP_026060801.1 DNA gyrase inhibitor YacG -
  OO986_RS03085 (VV208B2_05410) zapD 636964..637704 (-) 741 WP_011079546.1 cell division protein ZapD -
  OO986_RS03090 (VV208B2_05420) coaE 637737..638345 (-) 609 WP_108695081.1 dephospho-CoA kinase -
  OO986_RS03095 (VV208B2_05430) pilD 638347..639216 (-) 870 WP_108695082.1 A24 family peptidase Machinery gene
  OO986_RS03100 (VV208B2_05440) pilC 639310..640536 (-) 1227 WP_045618629.1 type II secretion system F family protein Machinery gene
  OO986_RS03105 (VV208B2_05450) pilB 640585..642273 (-) 1689 WP_108695083.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OO986_RS03110 (VV208B2_05460) - 642290..642772 (-) 483 WP_011151128.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OO986_RS03115 (VV208B2_05470) nadC 642993..643880 (-) 888 WP_108695084.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OO986_RS03120 (VV208B2_05480) ampD 643973..644545 (+) 573 WP_108695085.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  OO986_RS03125 (VV208B2_05490) pdhR 644934..645701 (+) 768 WP_108695086.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62468.44 Da        Isoelectric Point: 5.6662

>NTDB_id=96367 OO986_RS03105 WP_108695083.1 640585..642273(-) (pilB) [Vibrio vulnificus strain VV20-8B-2 isolate homogenised shrimp]
MHSNLATILRQANQLSLTQEQACRETIQASGVTAPEALLQLGFFQPDELTEQLSAIFGLPRTDLNQYDYQELCNQLGLRE
LITRHQALPLQKSNAGLILAVADPTNIQAEDDFRFATGVQVEIVLADCQELQAAIRRLYGKSIKQSQGSGLKEIHQDELA
NLVEVSDDEVESIEDLSQDESPVSRFINQILLDAVRKGASDIHFEPYENQYRVRLRCDGILVEVQQPPSHLSRRLSARIK
ILSKLDIAERRLPQDGRIKLRLNQETAIDMRVSTLPTLFGEKIVLRLLDSSSSSLDIDKLGYNPQQKQLYLDALRKPQGM
ILMTGPTGSGKTVSLYTGLSLLNRPEVNISTAEDPVEINLPGINQVQVKPKIGFGFAEALRSFLRQDPDIVMVGEIRDLE
TAEIAVKAAQTGHLVLSTLHTNSAAETIVRLSNMGIASFNLASSLSLIIAQRLARRLCSHCKQPHPYNATFELLGLKTDD
LIYQADRQGCHHCTHGYSGRVGIYEVMPFDEQLAEAIVKGASVQSLEMLARQKGMMTLKDSGLEKLKQGITSLEELQRVL
YL

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=96367 OO986_RS03105 WP_108695083.1 640585..642273(-) (pilB) [Vibrio vulnificus strain VV20-8B-2 isolate homogenised shrimp]
ATGCACAGCAATCTTGCCACTATTCTGCGTCAGGCCAACCAACTTAGCCTAACGCAAGAGCAAGCGTGTCGAGAGACAAT
ACAAGCTTCCGGTGTCACAGCACCGGAAGCTTTGTTGCAACTGGGCTTTTTCCAGCCTGATGAACTAACCGAACAGCTAA
GCGCGATTTTTGGCTTACCACGCACTGACCTCAACCAATATGACTACCAAGAGCTGTGTAATCAACTTGGGTTGCGTGAG
CTGATCACTCGTCACCAAGCACTGCCACTGCAAAAAAGCAACGCTGGTTTAATACTCGCGGTTGCAGACCCGACCAATAT
TCAAGCTGAAGATGATTTCCGTTTTGCCACAGGCGTGCAGGTGGAGATTGTTTTGGCCGATTGCCAAGAGCTGCAAGCGG
CGATTCGTAGACTCTATGGAAAGAGCATCAAACAGAGCCAAGGCTCTGGTTTAAAAGAGATTCACCAAGATGAGCTGGCG
AATTTGGTTGAGGTTTCAGATGACGAAGTCGAGTCTATTGAAGACTTAAGCCAAGATGAATCCCCCGTTAGCCGCTTTAT
CAACCAAATCCTGCTTGATGCGGTACGTAAAGGCGCGTCCGATATTCATTTTGAACCGTACGAAAACCAATACCGCGTGC
GATTGCGTTGCGATGGTATTTTAGTGGAAGTGCAGCAGCCCCCAAGCCATTTAAGCCGCCGTTTATCCGCGAGGATCAAG
ATCCTCTCCAAGTTGGATATTGCGGAAAGGCGTCTGCCACAAGATGGACGGATTAAGCTGCGCCTCAACCAAGAAACCGC
GATTGATATGCGCGTTTCCACCTTACCCACACTGTTTGGTGAAAAAATTGTGTTGCGACTTCTCGACAGCTCGAGCAGTA
GCTTGGATATTGATAAGTTAGGCTACAACCCGCAACAAAAGCAGCTCTACCTCGATGCCCTGCGCAAACCGCAAGGGATG
ATTTTGATGACGGGCCCAACAGGAAGCGGCAAAACCGTTTCGCTGTACACAGGCTTGAGTTTGCTTAACCGGCCAGAAGT
GAATATTTCCACCGCGGAAGACCCAGTCGAGATTAACCTCCCGGGAATCAACCAAGTGCAAGTGAAACCCAAAATTGGTT
TTGGTTTTGCAGAAGCATTGCGTTCTTTTCTCCGTCAAGACCCGGATATCGTCATGGTGGGGGAAATTCGAGATTTGGAA
ACCGCCGAGATAGCCGTCAAAGCAGCCCAAACCGGTCACCTTGTGCTATCTACCTTACATACCAACTCGGCAGCTGAAAC
CATTGTTCGTCTATCTAACATGGGGATCGCCAGCTTTAACTTGGCTTCATCCTTGAGTTTGATCATTGCTCAGCGTCTGG
CTCGTCGGTTATGCAGCCATTGCAAGCAACCTCATCCATACAACGCCACATTTGAGTTACTCGGTCTAAAAACTGACGAC
TTGATTTATCAAGCTGATAGACAGGGTTGCCATCATTGTACTCATGGTTATTCCGGTCGTGTCGGTATATACGAAGTCAT
GCCTTTTGATGAACAGCTTGCAGAGGCGATCGTTAAAGGTGCCTCGGTACAAAGCTTGGAGATGCTTGCTCGGCAAAAAG
GCATGATGACACTCAAAGATTCCGGCCTTGAAAAACTCAAACAGGGCATCACCAGCTTAGAAGAGCTGCAACGTGTCCTC
TATTTGTAA

Domains

Predicted by InterproScan.

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

(38-141)

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 campbellii strain DS40M4

76.512

100

0.765
  pilB Vibrio parahaemolyticus RIMD 2210633

76.335

100

0.763
  pilB Vibrio cholerae strain A1552

74.423

100

0.746
  pilB Legionella pneumophila strain ERS1305867

53.216

91.281

0.486
  pilB Acinetobacter baumannii D1279779

51.538

92.527

0.477
  pilB Acinetobacter baylyi ADP1

50.478

93.06

0.47
  pilF Neisseria gonorrhoeae MS11

45.31

100

0.456
  pilF Thermus thermophilus HB27

40.787

99.466

0.406
  pilB/pilB1 Synechocystis sp. PCC 6803

36.713

100

0.374
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.491

94.306

0.363

Multiple sequence alignment