Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY45_RS08255 Genome accession   NZ_CP046785
Coordinates   1609775..1611460 (-) Length   561 a.a.
NCBI ID   WP_089203076.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2013V-1136     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1604775..1616460
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY45_RS08225 rplS 1605247..1605600 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  GPY45_RS08230 yacG 1605946..1606140 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  GPY45_RS08235 zapD 1606209..1606949 (-) 741 WP_023624252.1 cell division protein ZapD -
  GPY45_RS08240 coaE 1606977..1607591 (-) 615 WP_069494409.1 dephospho-CoA kinase -
  GPY45_RS08245 pilD 1607592..1608461 (-) 870 WP_089203077.1 A24 family peptidase Machinery gene
  GPY45_RS08250 pilC 1608526..1609749 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  GPY45_RS08255 pilB 1609775..1611460 (-) 1686 WP_089203076.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY45_RS08260 pilA 1611466..1611939 (-) 474 WP_005462544.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  GPY45_RS08265 nadC 1612202..1613089 (-) 888 WP_005479699.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY45_RS08270 ampD 1613182..1613733 (+) 552 WP_025570907.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY45_RS08275 pdhR 1614139..1614906 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62350.22 Da        Isoelectric Point: 5.4089

>NTDB_id=407745 GPY45_RS08255 WP_089203076.1 1609775..1611460(-) (pilB) [Vibrio parahaemolyticus strain 2013V-1136]
MLTNLSTVLRQKGLLTFSQEESLIEQIKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRYNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=407745 GPY45_RS08255 WP_089203076.1 1609775..1611460(-) (pilB) [Vibrio parahaemolyticus strain 2013V-1136]
ATGTTGACCAACCTATCCACGGTTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTTAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGATATAATGCACTCCCACTCCACCGTACTCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTAAGTCATGAAAAGTCTGGGTTAAAAGAAATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGAGTATCCACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAAGCTCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGCGGAAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTGGAAAGTTTTAACCTCGCCTCTTCACTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATCCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCAGTACATGAACTGGAAAAGCTTGCCATTGCGAATGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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

98.752

100

0.988
  pilB Vibrio campbellii strain DS40M4

90.731

100

0.907
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.128

94.831

0.485
  pilB Legionella pneumophila strain ERS1305867

48.983

96.435

0.472
  pilB Acinetobacter baylyi ADP1

51.064

92.157

0.471
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.099

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.037

100

0.374
  pilF Thermus thermophilus HB27

36.572

100

0.369

Multiple sequence alignment