Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VV93_RS12560 Genome accession   NZ_CP009261
Coordinates   2750990..2752678 (+) Length   562 a.a.
NCBI ID   WP_039554610.1    Uniprot ID   -
Organism   Vibrio vulnificus strain 93U204     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2745990..2757678
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VV93_RS12540 (VV93_v1c24860) pdhR 2747588..2748355 (-) 768 WP_011079554.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  VV93_RS12545 (VV93_v1c24870) ampD 2748744..2749316 (-) 573 WP_039554604.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VV93_RS12550 (VV93_v1c24880) nadC 2749409..2750296 (+) 888 WP_039554606.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VV93_RS12555 (VV93_v1c24890) pilA 2750519..2750986 (+) 468 WP_039554608.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  VV93_RS12560 (VV93_v1c24900) pilB 2750990..2752678 (+) 1689 WP_039554610.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VV93_RS12565 (VV93_v1c24910) pilC 2752727..2753953 (+) 1227 WP_039554612.1 type II secretion system F family protein Machinery gene
  VV93_RS12570 (VV93_v1c24920) pilD 2754047..2754916 (+) 870 WP_039554614.1 A24 family peptidase Machinery gene
  VV93_RS12575 (VV93_v1c24930) coaE 2754918..2755526 (+) 609 WP_039554617.1 dephospho-CoA kinase -
  VV93_RS12580 (VV93_v1c24940) zapD 2755559..2756299 (+) 741 WP_011079546.1 cell division protein ZapD -
  VV93_RS12585 (VV93_v1c24950) yacG 2756362..2756556 (+) 195 WP_011079545.1 DNA gyrase inhibitor YacG -
  VV93_RS12590 (VV93_v1c24960) rplS 2756821..2757174 (-) 354 WP_011079544.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62482.46 Da        Isoelectric Point: 5.6662

>NTDB_id=127812 VV93_RS12560 WP_039554610.1 2750990..2752678(+) (pilB) [Vibrio vulnificus strain 93U204]
MQTNLATILRQANQLSLTQEQACRETIQASGVTAPEALLQLGFFQPDELTEQLSAIFGLPRTDLNQYDYQELCNQLGLRE
LITRHQALPLQKSNAGLILAVADPTNIQAEDDFRFATGVQVEIVLADCQELQAAIRRLYGKSIKQSQSSGLKEIHQDELA
NLVEVSDDEVESIEDLSQDESPVSRFINQILLDAVRKGASDIHFEPYENQYRVRLRCDGILVEVQQPPSHLSRRLSARIK
ILSKLDIAERRLPQDGRIKLRLNQETAIDMRVSTLPTLFGEKIVLRLLDSSSSSLDIDKLGYNPQQKHLYLDALRKPQGM
ILMTGPTGSGKTVSLYTGLSLLNRPEVNISTAEDPVEINLPGINQVQVKPKIGFGFAEALRSFLRQDPDIVMVGEIRDLE
TAEIAVKAAQTGHLVLSTLHTNSAAETIVRLSNMGIASFNLASSLSLIIAQRLARRLCSHCKQPHPYNATFELLGLKADD
LIYQADRQGCHHCTHGYSGRVGIYEVMPFDEQLAEAIVKGASVQSLEMLARQKGMMTLKDSGLEKLKQGITSLEELQRVL
YL

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=127812 VV93_RS12560 WP_039554610.1 2750990..2752678(+) (pilB) [Vibrio vulnificus strain 93U204]
ATGCAAACCAACCTTGCCACAATTCTTCGTCAGGCCAATCAACTTAGCCTAACGCAAGAACAAGCGTGTCGAGAGACAAT
ACAAGCTTCTGGTGTGACAGCACCGGAAGCCTTGTTGCAACTGGGATTTTTCCAGCCGGATGAATTAACCGAGCAGCTAA
GCGCGATTTTTGGCTTACCACGCACAGACCTCAACCAATATGACTACCAAGAGCTGTGTAATCAACTTGGGTTACGTGAG
CTGATCACCCGTCACCAAGCACTGCCACTGCAAAAAAGCAACGCCGGTTTAATACTCGCAGTTGCAGACCCTACCAATAT
TCAAGCTGAAGATGATTTCCGTTTTGCCACAGGCGTGCAGGTGGAGATTGTTTTGGCCGATTGCCAAGAGCTGCAAGCAG
CAATTCGTAGACTCTATGGAAAGAGCATCAAACAGAGCCAAAGCTCTGGTTTGAAAGAGATTCACCAAGATGAACTGGCG
AATTTGGTCGAGGTTTCAGATGACGAAGTCGAGTCTATTGAAGACTTAAGCCAAGATGAATCCCCCGTTAGCCGCTTTAT
CAACCAAATCCTGCTGGATGCGGTACGTAAAGGCGCGTCCGATATTCATTTTGAACCGTACGAAAACCAATACCGCGTGC
GATTGCGTTGCGATGGTATTTTGGTGGAAGTGCAGCAGCCCCCAAGCCATTTAAGCCGCCGTTTATCTGCGAGGATAAAG
ATCCTCTCCAAGCTGGATATTGCGGAAAGGCGTCTGCCACAAGATGGACGTATTAAGCTGCGCCTCAACCAAGAAACCGC
GATTGATATGCGCGTTTCCACCTTACCCACACTGTTTGGTGAAAAAATTGTGTTGCGACTTCTCGACAGCTCGAGCAGTA
GCTTGGATATTGATAAGTTAGGCTACAACCCGCAACAAAAGCATCTCTACCTCGATGCCCTTCGCAAACCGCAAGGGATG
ATTTTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCTCTGTACACGGGCTTGAGTTTGCTCAACCGACCTGAAGT
GAATATCTCCACCGCGGAAGACCCGGTCGAAATTAACCTCCCAGGTATCAACCAAGTGCAAGTGAAACCCAAAATTGGTT
TTGGTTTTGCCGAAGCATTGCGTTCTTTTCTCCGTCAAGACCCAGATATCGTCATGGTGGGGGAAATTCGAGATTTGGAA
ACCGCCGAGATAGCCGTCAAAGCAGCCCAAACCGGTCACCTTGTGCTATCCACCTTACATACCAACTCGGCAGCTGAAAC
CATTGTTCGTCTATCTAACATGGGGATCGCCAGCTTTAACTTAGCTTCATCCTTGAGTTTGATCATTGCTCAGCGTCTGG
CTCGTCGGTTATGCAGCCATTGCAAGCAACCTCATCCATACAACGCCACATTTGAGTTACTCGGTCTAAAAGCTGACGAC
TTGATTTATCAAGCTGATAGACAGGGTTGCCATCATTGTACTCATGGTTATTCCGGTCGTGTCGGTATATACGAAGTCAT
GCCTTTTGATGAACAGCTTGCAGAGGCGATCGTTAAAGGTGCCTCGGTACAAAGCTTGGAGATGCTTGCTCGGCAAAAAG
GCATGATGACACTCAAAGATTCCGGCCTTGAAAAACTCAAACAGGGCATCACCAGTTTAGAAGAGCTGCAACGCGTCCTC
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

75.623

100

0.756
  pilB Vibrio cholerae strain A1552

74.423

100

0.746
  pilB Legionella pneumophila strain ERS1305867

52.827

91.281

0.482
  pilB Acinetobacter baumannii D1279779

51.731

92.527

0.479
  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