Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   FORC18_RS02975 Genome accession   NZ_CP013826
Coordinates   588893..590578 (-) Length   561 a.a.
NCBI ID   WP_020835398.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain FORC_018     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 583893..595578
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FORC18_RS02945 (FORC18_0483) rplS 584315..584668 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  FORC18_RS02950 (FORC18_0484) yacG 585066..585260 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  FORC18_RS02955 (FORC18_0485) zapD 585329..586069 (-) 741 WP_023624252.1 cell division protein ZapD -
  FORC18_RS02960 (FORC18_0486) coaE 586097..586711 (-) 615 WP_025633754.1 dephospho-CoA kinase -
  FORC18_RS02965 (FORC18_0487) pilD 586712..587581 (-) 870 WP_005493974.1 prepilin peptidase Machinery gene
  FORC18_RS02970 (FORC18_0488) pilC 587646..588869 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  FORC18_RS02975 (FORC18_0489) pilB 588893..590578 (-) 1686 WP_020835398.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FORC18_RS02980 (FORC18_0490) pilA 590578..590982 (-) 405 WP_015297250.1 pilin Machinery gene
  FORC18_RS02985 (FORC18_0491) nadC 591246..592133 (-) 888 WP_025442237.1 carboxylating nicotinate-nucleotide diphosphorylase -
  FORC18_RS02990 (FORC18_0492) ampD 592226..592777 (+) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  FORC18_RS02995 (FORC18_0493) pdhR 593183..593950 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62218.06 Da        Isoelectric Point: 5.6500

>NTDB_id=164898 FORC18_RS02975 WP_020835398.1 588893..590578(-) (pilB) [Vibrio parahaemolyticus strain FORC_018]
MHTNLSTILRQSGLLSLTQEESLIEHVKASGISMPEALLSSGLLTSSELAEHLSSLFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQIELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=164898 FORC18_RS02975 WP_020835398.1 588893..590578(-) (pilB) [Vibrio parahaemolyticus strain FORC_018]
ATGCACACCAACCTCTCTACGATTCTTCGCCAATCTGGATTACTTAGTTTAACCCAGGAAGAATCGTTAATAGAGCACGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTATTGACATCAAGCGAACTCGCTGAGCACTTAA
GTTCTCTCTTTGGTTTGAGTCAGCCCGAGTTATCTCAGTACGAGTACGCTTCGCTTTGTCAACAACTCGGTCTACGTGAA
TTAATCACTCGGCATAACGCACTCCCACTCCAGCGTACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAGGATGACTTCCGCTTTGCCACTGGTTTACAAATTGAATTGGTGTTAGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGCCATGAGAAATCTGGATTAAAAGAGATCAACCAAGAAGAATTAGCCAAT
CTGGTCGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAGTCGCCCGTCAGCCGTTACATAAA
CCAAATTCTGCTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATAGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCTACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGTTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACCGTTTCTCTGTACACTGGGCTAAGTATCCTCAATAAGCCAGAGATCAA
CATTTCCACGGCAGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAGGCTCTACGTTCTTTTCTGCGTCAAGACCCAGATGTAGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
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

97.148

100

0.971
  pilB Vibrio campbellii strain DS40M4

89.483

100

0.895
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.81

93.583

0.485
  pilB Legionella pneumophila strain ERS1305867

48.561

99.109

0.481
  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

37.437

100

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.213

100

0.376
  pilF Thermus thermophilus HB27

36.879

100

0.371

Multiple sequence alignment