Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   QZL40_RS13165 Genome accession   NZ_CP129936
Coordinates   2812170..2813855 (+) Length   561 a.a.
NCBI ID   WP_029855968.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain I13A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2807170..2818855
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QZL40_RS13145 pdhR 2808744..2809511 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  QZL40_RS13150 ampD 2809917..2810468 (-) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  QZL40_RS13155 nadC 2810561..2811448 (+) 888 WP_025638275.1 carboxylating nicotinate-nucleotide diphosphorylase -
  QZL40_RS13160 - 2811712..2812170 (+) 459 WP_021486793.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  QZL40_RS13165 pilB 2812170..2813855 (+) 1686 WP_029855968.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QZL40_RS13170 pilC 2813879..2815102 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  QZL40_RS13175 pilD 2815167..2816036 (+) 870 WP_025533026.1 A24 family peptidase Machinery gene
  QZL40_RS13180 coaE 2816037..2816651 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  QZL40_RS13185 zapD 2816679..2817419 (+) 741 WP_023624252.1 cell division protein ZapD -
  QZL40_RS13190 yacG 2817488..2817682 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  QZL40_RS13195 rplS 2818119..2818472 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62465.32 Da        Isoelectric Point: 5.2936

>NTDB_id=856483 QZL40_RS13165 WP_029855968.1 2812170..2813855(+) (pilB) [Vibrio parahaemolyticus strain I13A]
MLTNLSTILRQNGLLTFPQEESLFEQIKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRYNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=856483 QZL40_RS13165 WP_029855968.1 2812170..2813855(+) (pilB) [Vibrio parahaemolyticus strain I13A]
ATGCTAACCAACCTCTCGACAATTCTTCGCCAAAACGGGTTACTGACTTTTCCCCAAGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGTATCTCGATGCCGGAGGCTTTACTTAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGATATAATGCACTCCCGCTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAAGATGATTTCCGCTTTGCCACTGGGTTACAGGTTGAACTGGTCTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGTCGTTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAACTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCACTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-141)

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

97.326

100

0.973
  pilB Vibrio campbellii strain DS40M4

89.84

100

0.898
  pilB Vibrio cholerae strain A1552

74.377

100

0.745
  pilB Acinetobacter baumannii D1279779

51.509

94.474

0.487
  pilB Acinetobacter baylyi ADP1

51.064

92.157

0.471
  pilB Legionella pneumophila strain ERS1305867

48.976

95.722

0.469
  pilF Neisseria gonorrhoeae MS11

45.39

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

37.331

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.508

100

0.369
  pilF Thermus thermophilus HB27

36.702

100

0.369