Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   FORC23_RS03240 Genome accession   NZ_CP012950
Coordinates   655224..656909 (-) Length   561 a.a.
NCBI ID   WP_070225511.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain FORC_023 isolate 378     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 650224..661909
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FORC23_RS03210 (FORC23_0540) rplS 650720..651073 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  FORC23_RS03215 (FORC23_0541) yacG 651396..651590 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  FORC23_RS03220 (FORC23_0542) zapD 651659..652399 (-) 741 WP_015297254.1 cell division protein ZapD -
  FORC23_RS03225 (FORC23_0543) coaE 652427..653041 (-) 615 WP_025523092.1 dephospho-CoA kinase -
  FORC23_RS03230 (FORC23_0544) pilD 653042..653911 (-) 870 WP_025523093.1 prepilin peptidase Machinery gene
  FORC23_RS03235 (FORC23_0545) pilC 653976..655199 (-) 1224 WP_025523095.1 type II secretion system F family protein Machinery gene
  FORC23_RS03240 (FORC23_0546) pilB 655224..656909 (-) 1686 WP_070225511.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FORC23_RS03245 (FORC23_0547) pilA 656913..657362 (-) 450 WP_024699421.1 pilin Machinery gene
  FORC23_RS03250 (FORC23_0548) nadC 657626..658513 (-) 888 WP_025523098.1 carboxylating nicotinate-nucleotide diphosphorylase -
  FORC23_RS03255 (FORC23_0549) ampD 658606..659157 (+) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  FORC23_RS03260 (FORC23_0550) pdhR 659563..660330 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62430.45 Da        Isoelectric Point: 6.1141

>NTDB_id=158475 FORC23_RS03240 WP_070225511.1 655224..656909(-) (pilB) [Vibrio parahaemolyticus strain FORC_023 isolate 378]
MLTNLSTVLRQKGLLTFSQEETLIEHVKASGISMPEALLSSGFFTSSELVEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAIADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRALGKERSQIKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLNIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCRQPQEHTVQLQHLGIQTTDK
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIAKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=158475 FORC23_RS03240 WP_070225511.1 655224..656909(-) (pilB) [Vibrio parahaemolyticus strain FORC_023 isolate 378]
ATGTTAACCAACCTATCAACCGTTCTTCGCCAAAAAGGGTTACTGACGTTTTCCCAAGAAGAAACGTTAATAGAGCACGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGTCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAACTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCACCGCACGCCTTCAACGTTATTATTAGCGATTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGCGAACTCAGTGCAG
CAATACGCCGTCTTTATGGTCGCGCTCTTGGTAAAGAACGATCCCAGATCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCGCCTGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCGGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCAGCATCAC
TGAATATCGACAAGCTTGGTTATAGTGAGCAACAAAAGCAGCTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCTTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCTCAAACCGGTCACTTAGTGCTTTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCGCTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAGACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAA
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAACTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGCAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGAGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-142)

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

96.791

100

0.968
  pilB Vibrio campbellii strain DS40M4

89.84

100

0.898
  pilB Vibrio cholerae strain A1552

73.132

100

0.733
  pilB Acinetobacter baumannii D1279779

50.94

94.831

0.483
  pilB Legionella pneumophila strain ERS1305867

48.429

96.435

0.467
  pilB Acinetobacter baylyi ADP1

50.484

92.157

0.465
  pilF Neisseria gonorrhoeae MS11

44.681

100

0.449
  pilB/pilB1 Synechocystis sp. PCC 6803

37.5

100

0.396
  pilF Thermus thermophilus HB27

36.477

100

0.365
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.042

100

0.364

Multiple sequence alignment