Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABRA92_RS02890 Genome accession   NZ_CP158305
Coordinates   583607..585292 (-) Length   561 a.a.
NCBI ID   WP_350225701.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain VP93     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 578607..590292
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABRA92_RS02860 rplS 579111..579464 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  ABRA92_RS02865 yacG 579780..579974 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  ABRA92_RS02870 zapD 580043..580783 (-) 741 WP_023624252.1 cell division protein ZapD -
  ABRA92_RS02875 coaE 580811..581425 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  ABRA92_RS02880 pilD 581426..582295 (-) 870 WP_031830116.1 A24 family peptidase Machinery gene
  ABRA92_RS02885 pilC 582360..583583 (-) 1224 WP_218763322.1 type II secretion system F family protein Machinery gene
  ABRA92_RS02890 pilB 583607..585292 (-) 1686 WP_350225701.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABRA92_RS02895 pilA 585298..585717 (-) 420 WP_140275345.1 pilin Machinery gene
  ABRA92_RS02900 nadC 585981..586868 (-) 888 WP_025442237.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ABRA92_RS02905 ampD 586961..587512 (+) 552 WP_005462574.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ABRA92_RS02910 pdhR 587918..588685 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62421.26 Da        Isoelectric Point: 5.2955

>NTDB_id=1010537 ABRA92_RS02890 WP_350225701.1 583607..585292(-) (pilB) [Vibrio parahaemolyticus strain VP93]
MLTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRYNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRALGQERSQIKDINQEDLAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRIRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1010537 ABRA92_RS02890 WP_350225701.1 583607..585292(-) (pilB) [Vibrio parahaemolyticus strain VP93]
ATGTTAACAAACCTCTCAACGGTTCTTCGTCAAAAAGGATTATTGACGTTTTCCCAAGAAGAATCGCTAATAGAGCAAGT
TAAGGCTTCTGGCATCTCGATGCCGGAGGCTTTACTTAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGATATAATGCACTCCCGCTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAAGATGATTTCCGCTTTGCCACTGGGTTACAGGTTGAATTGGTCTTGGCGGATTTTCGCGAACTCAGTGCGG
CAATACGCCGTCTTTATGGTCGAGCACTTGGTCAAGAACGCTCTCAAATCAAAGACATCAACCAAGAAGATCTAGCCAAC
TTGGTTGACGTCGGCGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAATTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAATATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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)

(38-142)


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

97.326

100

0.973
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

74.199

100

0.743
  pilB Acinetobacter baumannii D1279779

51.607

94.296

0.487
  pilB Acinetobacter baylyi ADP1

51.257

92.157

0.472
  pilB Legionella pneumophila strain ERS1305867

49.162

95.722

0.471
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

37.669

100

0.398
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.861

100

0.373
  pilF Thermus thermophilus HB27

36.17

100

0.364

Multiple sequence alignment