Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   QU579_RS03025 Genome accession   NZ_CP128803
Coordinates   619684..621369 (-) Length   561 a.a.
NCBI ID   WP_342821213.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain NJIFDCVp52     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 614684..626369
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QU579_RS02995 (QU579_02995) rplS 615134..615487 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  QU579_RS03000 (QU579_03000) yacG 615857..616051 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  QU579_RS03005 (QU579_03005) zapD 616120..616860 (-) 741 WP_005480890.1 cell division protein ZapD -
  QU579_RS03010 (QU579_03010) coaE 616888..617502 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  QU579_RS03015 (QU579_03015) pilD 617503..618372 (-) 870 WP_342821214.1 A24 family peptidase Machinery gene
  QU579_RS03020 (QU579_03020) pilC 618437..619660 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  QU579_RS03025 (QU579_03025) pilB 619684..621369 (-) 1686 WP_342821213.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QU579_RS03030 (QU579_03030) pilA 621381..621818 (-) 438 WP_021453050.1 pilin Machinery gene
  QU579_RS03035 (QU579_03035) nadC 622081..622968 (-) 888 WP_140260936.1 carboxylating nicotinate-nucleotide diphosphorylase -
  QU579_RS03040 (QU579_03040) ampD 623061..623612 (+) 552 WP_342821221.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  QU579_RS03045 (QU579_03045) pdhR 624018..624785 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62507.40 Da        Isoelectric Point: 5.6885

>NTDB_id=849644 QU579_RS03025 WP_342821213.1 619684..621369(-) (pilB) [Vibrio parahaemolyticus strain NJIFDCVp52]
MITNLSTVLRQKGLLTLSQEESLFEQIKASGISMPEALLSSRFFTSSELAEHLSSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEVDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=849644 QU579_RS03025 WP_342821213.1 619684..621369(-) (pilB) [Vibrio parahaemolyticus strain NJIFDCVp52]
GTGATAACCAACCTCTCCACGGTTCTTCGTCAAAAAGGGTTACTGACCTTATCCCAGGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTCAGTTCTAGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGTTTAAACCAGCCTGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAACGCACTCCCGCTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAAGATGATTTCCGCTTTGCCACTGGGTTACAGGTTGAACTGGTCTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGTCGTTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAGTCGACAATATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGGGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAATCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAGCAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(41-141)

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

96.97

100

0.97
  pilB Vibrio campbellii strain DS40M4

89.483

100

0.895
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.698

94.474

0.488
  pilB Legionella pneumophila strain ERS1305867

49.162

95.722

0.471
  pilB Acinetobacter baylyi ADP1

50.87

92.157

0.469
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

37.311

100

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.14

100

0.367
  pilF Thermus thermophilus HB27

36.348

100

0.365