Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   QRT07_RS03130 Genome accession   NZ_CP127846
Coordinates   639050..640735 (-) Length   561 a.a.
NCBI ID   WP_025635512.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain VP16     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 634050..645735
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QRT07_RS03100 (QRT07_03100) rplS 634496..634849 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  QRT07_RS03105 (QRT07_03105) yacG 635223..635417 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  QRT07_RS03110 (QRT07_03110) zapD 635486..636226 (-) 741 WP_025635510.1 cell division protein ZapD -
  QRT07_RS03115 (QRT07_03115) coaE 636254..636868 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  QRT07_RS03120 (QRT07_03120) pilD 636869..637738 (-) 870 WP_015297252.1 A24 family peptidase Machinery gene
  QRT07_RS03125 (QRT07_03125) pilC 637803..639026 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  QRT07_RS03130 (QRT07_03130) pilB 639050..640735 (-) 1686 WP_025635512.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QRT07_RS03135 (QRT07_03135) - 640735..641169 (-) 435 WP_025501252.1 pilin -
  QRT07_RS03140 (QRT07_03140) nadC 641432..642319 (-) 888 WP_005479699.1 carboxylating nicotinate-nucleotide diphosphorylase -
  QRT07_RS03145 (QRT07_03145) ampD 642412..642963 (+) 552 WP_025635516.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  QRT07_RS03150 (QRT07_03150) pdhR 643369..644136 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62456.27 Da        Isoelectric Point: 5.5270

>NTDB_id=844688 QRT07_RS03130 WP_025635512.1 639050..640735(-) (pilB) [Vibrio parahaemolyticus strain VP16]
MQTNLSTVLRQKGLLTLSQEESLFEQIKASGISMPEALLSYGFFTSSELAEHLSSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEDLAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=844688 QRT07_RS03130 WP_025635512.1 639050..640735(-) (pilB) [Vibrio parahaemolyticus strain VP16]
ATGCAAACCAACCTCTCCACGGTTCTTCGTCAAAAAGGGTTACTGACCTTATCCCAAGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTCAGTTATGGATTCTTCACATCAAGCGAACTAGCCGAGCACTTAA
GTTCTATTTTTGGTTTAAACCAGCCTGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAACGCACTCCCGCTCCACCGCACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTAAGTCATGAAAAGTCTGGGTTAAAAGAAATCAACCAAGAAGATCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAAATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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

98.217

100

0.982
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

73.488

100

0.736
  pilB Acinetobacter baumannii D1279779

51.923

92.692

0.481
  pilB Legionella pneumophila strain ERS1305867

49.351

96.078

0.474
  pilB Acinetobacter baylyi ADP1

51.064

92.157

0.471
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

36.913

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.861

100

0.373
  pilF Thermus thermophilus HB27

36.348

100

0.365