Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY17_RS21995 Genome accession   NZ_CP046782
Coordinates   2755177..2756862 (+) Length   561 a.a.
NCBI ID   WP_069545807.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2013V-1244     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2750177..2761862
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY17_RS21975 pdhR 2751806..2752573 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  GPY17_RS21980 ampD 2752979..2753530 (-) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY17_RS21985 nadC 2753623..2754510 (+) 888 WP_025638275.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY17_RS21990 pilA 2754773..2755177 (+) 405 WP_069545806.1 pilin Machinery gene
  GPY17_RS21995 pilB 2755177..2756862 (+) 1686 WP_069545807.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY17_RS22000 pilC 2756887..2758110 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  GPY17_RS22005 pilD 2758175..2759044 (+) 870 WP_042772912.1 A24 family peptidase Machinery gene
  GPY17_RS22010 coaE 2759045..2759659 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  GPY17_RS22015 zapD 2759687..2760427 (+) 741 WP_023624252.1 cell division protein ZapD -
  GPY17_RS22020 yacG 2760496..2760690 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  GPY17_RS22025 rplS 2761005..2761358 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62378.20 Da        Isoelectric Point: 5.7982

>NTDB_id=407653 GPY17_RS21995 WP_069545807.1 2755177..2756862(+) (pilB) [Vibrio parahaemolyticus strain 2013V-1244]
MHTNLSTVLRQKGLLTFSQEESLLEQAKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSTAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDK
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=407653 GPY17_RS21995 WP_069545807.1 2755177..2756862(+) (pilB) [Vibrio parahaemolyticus strain 2013V-1244]
ATGCACACCAACCTCTCCACGGTTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTGCTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCCTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGCACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAGTTGGTGTTGGCGGATTTTCGCGAACTCAGTACAG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCGGTGCGTAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCCGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACTGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
TATATCCACAGCAGAGGATCCTGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTACGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTAGGCATTCAAACAACTGACAAA
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-144)

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 parahaemolyticus RIMD 2210633

99.109

100

0.991
  pilB Vibrio campbellii strain DS40M4

90.731

100

0.907
  pilB Vibrio cholerae strain A1552

73.488

100

0.736
  pilB Acinetobacter baumannii D1279779

50.273

97.861

0.492
  pilB Acinetobacter baylyi ADP1

48.474

99.287

0.481
  pilB Legionella pneumophila strain ERS1305867

48.987

96.791

0.474
  pilF Neisseria gonorrhoeae MS11

45.39

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

37.143

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.456

100

0.378
  pilF Thermus thermophilus HB27

36.396

100

0.367

Multiple sequence alignment