Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AABD46_RS03055 Genome accession   NZ_CP150947
Coordinates   622568..624253 (-) Length   561 a.a.
NCBI ID   WP_140103792.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain vp-HL-202212     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 617568..629253
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AABD46_RS03025 (AABD46_03025) rplS 617998..618351 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  AABD46_RS03030 (AABD46_03030) yacG 618740..618934 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  AABD46_RS03035 (AABD46_03035) zapD 619003..619743 (-) 741 WP_023624252.1 cell division protein ZapD -
  AABD46_RS03040 (AABD46_03040) coaE 619771..620385 (-) 615 WP_031847490.1 dephospho-CoA kinase -
  AABD46_RS03045 (AABD46_03045) pilD 620386..621255 (-) 870 WP_015297252.1 A24 family peptidase Machinery gene
  AABD46_RS03050 (AABD46_03050) pilC 621320..622543 (-) 1224 WP_140103791.1 type II secretion system F family protein Machinery gene
  AABD46_RS03055 (AABD46_03055) pilB 622568..624253 (-) 1686 WP_140103792.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AABD46_RS03060 (AABD46_03060) - 624250..624708 (-) 459 WP_029847971.1 pilin -
  AABD46_RS03065 (AABD46_03065) nadC 624974..625861 (-) 888 WP_140103793.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AABD46_RS03070 (AABD46_03070) ampD 625954..626505 (+) 552 WP_005462574.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  AABD46_RS03075 (AABD46_03075) pdhR 626911..627678 (+) 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=974181 AABD46_RS03055 WP_140103792.1 622568..624253(-) (pilB) [Vibrio parahaemolyticus strain vp-HL-202212]
MITNLSTILRQAGLLTFSQEESLLEQVKASGISMPEALLSSGLFTSSELAEHLSSLFSLSQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQTEDDFRFATGLQVELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=974181 AABD46_RS03055 WP_140103792.1 622568..624253(-) (pilB) [Vibrio parahaemolyticus strain vp-HL-202212]
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