Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EHC68_RS03205 Genome accession   NZ_CP034305
Coordinates   612610..614295 (-) Length   561 a.a.
NCBI ID   WP_031855538.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 20151116002-3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 607610..619295
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EHC68_RS03175 (EHC68_03210) rplS 608058..608411 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  EHC68_RS03180 (EHC68_03215) yacG 608783..608977 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  EHC68_RS03185 (EHC68_03220) zapD 609046..609786 (-) 741 WP_023624252.1 cell division protein ZapD -
  EHC68_RS03190 (EHC68_03225) coaE 609814..610428 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  EHC68_RS03195 (EHC68_03230) pilD 610429..611298 (-) 870 WP_031855539.1 A24 family peptidase Machinery gene
  EHC68_RS03200 (EHC68_03235) pilC 611363..612586 (-) 1224 WP_023585959.1 type II secretion system F family protein Machinery gene
  EHC68_RS03205 (EHC68_03240) pilB 612610..614295 (-) 1686 WP_031855538.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EHC68_RS03210 (EHC68_03245) pilA 614295..614723 (-) 429 WP_009698754.1 type IV pilin protein Machinery gene
  EHC68_RS03215 (EHC68_03250) nadC 614987..615874 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EHC68_RS03220 (EHC68_03255) ampD 615975..616514 (+) 540 Protein_516 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  EHC68_RS03225 (EHC68_03260) pdhR 616918..617676 (+) 759 Protein_517 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62469.43 Da        Isoelectric Point: 5.6709

>NTDB_id=330583 EHC68_RS03205 WP_031855538.1 612610..614295(-) (pilB) [Vibrio parahaemolyticus strain 20151116002-3]
MLTNLSTILRQKGLLTFFQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAVIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLKALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLDIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=330583 EHC68_RS03205 WP_031855538.1 612610..614295(-) (pilB) [Vibrio parahaemolyticus strain 20151116002-3]
ATGCTAACCAACCTCTCCACGATTCTTCGTCAAAAAGGATTACTGACGTTTTTCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCTCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCACCGTACTCCTTCAACGTTATTGTTAGCGGTTGCCGATCCCACTAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGCGAACTCAGTGCAG
TAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCACCCGTTAGCCGTTACATCAA
CCAAATTCTGTTGGATGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TAGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAACTGTATTTAAAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAGCCTAAAATTGGTTTTG
GCTTTGCAGAAGCACTACGCTCTTTCCTGCGTCAAGATCCCGACGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCGTCCCAAACAGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTGGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGACATCCAAACAACTGACAAC
ATCTTTAAAGCAAACCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAATGGCA
TGAGTACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-144)


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

98.574

100

0.986
  pilB Vibrio campbellii strain DS40M4

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

50.933

95.544

0.487
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilB Acinetobacter baylyi ADP1

50.484

92.157

0.465
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

36.379

100

0.383
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.332

100

0.367
  pilF Thermus thermophilus HB27

36.46

100

0.367

Multiple sequence alignment