Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EHC64_RS03380 Genome accession   NZ_CP034289
Coordinates   652372..654057 (-) Length   561 a.a.
NCBI ID   WP_140103792.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 20140722001-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 647372..659057
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EHC64_RS03350 (EHC64_03420) rplS 647803..648156 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  EHC64_RS03355 (EHC64_03425) yacG 648544..648738 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  EHC64_RS03360 (EHC64_03430) zapD 648807..649547 (-) 741 WP_023624252.1 cell division protein ZapD -
  EHC64_RS03365 (EHC64_03435) coaE 649575..650189 (-) 615 WP_031847490.1 dephospho-CoA kinase -
  EHC64_RS03370 (EHC64_03440) pilD 650190..651059 (-) 870 WP_015297252.1 A24 family peptidase Machinery gene
  EHC64_RS03375 (EHC64_03445) pilC 651124..652347 (-) 1224 WP_140103791.1 type II secretion system F family protein Machinery gene
  EHC64_RS03380 (EHC64_03450) pilB 652372..654057 (-) 1686 WP_140103792.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EHC64_RS03385 (EHC64_03455) - 654054..654512 (-) 459 WP_029847971.1 pilin -
  EHC64_RS03390 (EHC64_03465) nadC 654778..655665 (-) 888 WP_140103793.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EHC64_RS03395 (EHC64_03470) ampD 655758..656309 (+) 552 WP_005462574.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  EHC64_RS03400 (EHC64_03475) pdhR 656715..657482 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62311.14 Da        Isoelectric Point: 5.4031

>NTDB_id=330450 EHC64_RS03380 WP_140103792.1 652372..654057(-) (pilB) [Vibrio parahaemolyticus strain 20140722001-1]
MITNLSTILRQAGLLTFSQEESLLEQVKASGISMPEALLSSGLFTSSELAEHLSSLFSLSQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQTEDDFRFATGLQVELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=330450 EHC64_RS03380 WP_140103792.1 652372..654057(-) (pilB) [Vibrio parahaemolyticus strain 20140722001-1]
ATGATAACCAACCTCTCAACAATTCTTCGCCAAGCAGGATTACTAACATTTTCCCAAGAAGAATCGTTGCTTGAGCAAGT
CAAGGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GTTCTCTCTTTAGTTTGAGTCAGCCCGAGTTATCTCAGTATGAGTACGCTTCGCTTTGTCAACAACTCGGTCTACGTGAA
TTAATCACTCGACATAACGCACTCCCACTCCAGCGTACGCCTTCAACTTTGTTATTAGCCGTTGCCGACCCGACGAACCA
ACAAACAGAAGATGACTTTCGTTTTGCGACAGGGTTACAGGTTGAACTAGTCTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTGTATGGTCGTTCATTGAGTCATGAGAAGTCTGGATTAAAAGAGATCAACCAAGAAGAGTTAGCCAAT
CTGGTTGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAGTATTCTCAATAAACCAGAGATCAA
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

97.683

100

0.977
  pilB Vibrio campbellii strain DS40M4

90.553

100

0.906
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

52.008

93.226

0.485
  pilB Legionella pneumophila strain ERS1305867

48.022

99.109

0.476
  pilB Acinetobacter baylyi ADP1

47.756

99.287

0.474
  pilF Neisseria gonorrhoeae MS11

45.567

100

0.458
  pilB/pilB1 Synechocystis sp. PCC 6803

36.903

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.491

100

0.371
  pilF Thermus thermophilus HB27

36.348

100

0.365

Multiple sequence alignment