Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   QRP18_RS12680 Genome accession   NZ_CP160382
Coordinates   2758173..2759858 (+) Length   561 a.a.
NCBI ID   WP_140062768.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain ST110-8     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2753173..2764858
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QRP18_RS12660 (QRP18_12660) pdhR 2754763..2755530 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  QRP18_RS12665 (QRP18_12665) ampD 2755936..2756487 (-) 552 WP_110177559.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  QRP18_RS12670 (QRP18_12670) nadC 2756580..2757467 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  QRP18_RS12675 (QRP18_12675) pilA 2757731..2758162 (+) 432 WP_025508892.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  QRP18_RS12680 (QRP18_12680) pilB 2758173..2759858 (+) 1686 WP_140062768.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QRP18_RS12685 (QRP18_12685) pilC 2759883..2761106 (+) 1224 WP_025523095.1 type II secretion system F family protein Machinery gene
  QRP18_RS12690 (QRP18_12690) pilD 2761171..2762040 (+) 870 WP_140062767.1 A24 family peptidase Machinery gene
  QRP18_RS12695 (QRP18_12695) coaE 2762041..2762655 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  QRP18_RS12700 (QRP18_12700) zapD 2762683..2763423 (+) 741 WP_023624252.1 cell division protein ZapD -
  QRP18_RS12705 (QRP18_12705) yacG 2763492..2763686 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  QRP18_RS12710 (QRP18_12710) rplS 2764061..2764414 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62340.18 Da        Isoelectric Point: 5.5288

>NTDB_id=1020549 QRP18_RS12680 WP_140062768.1 2758173..2759858(+) (pilB) [Vibrio parahaemolyticus strain ST110-8]
MLTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSTAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1020549 QRP18_RS12680 WP_140062768.1 2758173..2759858(+) (pilB) [Vibrio parahaemolyticus strain ST110-8]
ATGTTAACAAACCTCTCAACAGTTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCCTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAGTTGGTGTTGGCGGATTTTCGCGAACTCAGTACAG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAAGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTAGGCATTCAAACAACTGACAAC
ATCTTTAAAGCAAACCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
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

99.287

100

0.993
  pilB Vibrio campbellii strain DS40M4

90.909

100

0.909
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.316

94.831

0.487
  pilB Acinetobacter baylyi ADP1

48.115

99.287

0.478
  pilB Legionella pneumophila strain ERS1305867

48.983

96.435

0.472
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.268

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.861

100

0.373
  pilF Thermus thermophilus HB27

36.396

100

0.367

Multiple sequence alignment