Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   YZOS03_RS02850 Genome accession   NZ_AP023185
Coordinates   585278..586963 (-) Length   561 a.a.
NCBI ID   WP_005379975.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain YZOS-03     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 580278..591963
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  YZOS03_RS02820 (YZOS03_04780) rplS 580524..580877 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  YZOS03_RS02825 (YZOS03_04790) yacG 581361..581555 (-) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  YZOS03_RS02830 (YZOS03_04800) zapD 581714..582454 (-) 741 WP_005373086.1 cell division protein ZapD -
  YZOS03_RS02835 (YZOS03_04810) coaE 582482..583096 (-) 615 WP_064354292.1 dephospho-CoA kinase -
  YZOS03_RS02840 (YZOS03_04820) pilD 583097..583966 (-) 870 WP_064354291.1 A24 family peptidase Machinery gene
  YZOS03_RS02845 (YZOS03_04830) pilC 584031..585254 (-) 1224 WP_064368761.1 type II secretion system F family protein Machinery gene
  YZOS03_RS02850 (YZOS03_04840) pilB 585278..586963 (-) 1686 WP_005379975.1 type IV-A pilus assembly ATPase PilB Machinery gene
  YZOS03_RS02855 (YZOS03_04850) - 586963..587421 (-) 459 WP_064368760.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  YZOS03_RS02860 (YZOS03_04860) nadC 587683..588570 (-) 888 WP_017820396.1 carboxylating nicotinate-nucleotide diphosphorylase -
  YZOS03_RS02865 (YZOS03_04870) ampD 588663..589214 (+) 552 WP_005386614.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  YZOS03_RS02870 (YZOS03_04880) pdhR 589620..590387 (+) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62120.96 Da        Isoelectric Point: 5.5200

>NTDB_id=81494 YZOS03_RS02850 WP_005379975.1 585278..586963(-) (pilB) [Vibrio alginolyticus strain YZOS-03]
MLTNLSTVLRQAGILTFSQEELLLEQAKASGISMPEALLNSGFFQSHELTEHLSSVFGLSCASLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=81494 YZOS03_RS02850 WP_005379975.1 585278..586963(-) (pilB) [Vibrio alginolyticus strain YZOS-03]
ATGCTAACCAACCTCTCAACAGTTCTTCGCCAAGCAGGGATACTGACTTTTTCCCAAGAAGAACTGTTACTTGAGCAAGC
TAAAGCTTCTGGTATATCAATGCCGGAGGCTTTGCTCAATTCTGGCTTTTTTCAATCTCATGAATTAACGGAGCACCTAA
GCTCTGTTTTCGGGCTTTCTTGCGCTTCTCTCAATCAATACGAATACGCTTCGTTATGCCAAACACTAGGTTTGCGAGAT
TTGATCACTCGGCACAACGCTCTGCCGCTTAATCGCACCTCATCAACTTTGATTCTCGCGGTTGCCGATCCAACCAATCT
TCAAGCCGAAGACGACTTTCGTTTTGCAACAGGCTTGCAAGTCGAACTTGTTCTGGCTGATTTTCGCGAACTGACCGCTG
CGATTCGGCGCTTATATGGTCGTTCATTGAGTCATGAGAAGTCCGGGTTAAAAGAGATCAACCAAGAAGAGTTAGCCAAT
CTGGTTGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGCGTGCGCC
TACGTTGCGATGGCATCTTAATCGAAACACAGCAGCCGCCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCGAT
TGATATGCGTGTATCCACGCTACCTACTCTATTCGGAGAGAAAATTGTATTACGACTGCTCGACAGCAGCTCTGCGTCAC
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACTGGGAGCGGGAAAACCGTTTCTCTGTACACTGGGCTGAGTATTCTCAATAAACCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTTCTTCGTCAAGACCCCGATGTGGTCATGGTCGGTGAGATTCGTGACTTAGACACT
GCGGAAATCGCCATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTGCATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAGTTTGATTATTGCCCAGCGCTTAGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTTGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGCAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGAATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
TTTTAA

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 campbellii strain DS40M4

93.405

100

0.934
  pilB Vibrio parahaemolyticus RIMD 2210633

93.226

100

0.932
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.731

92.692

0.48
  pilB Legionella pneumophila strain ERS1305867

48.987

96.791

0.474
  pilB Acinetobacter baylyi ADP1

48.708

96.613

0.471
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

36.594

100

0.387
  pilF Thermus thermophilus HB27

36.477

100

0.365
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.315

99.643

0.362

Multiple sequence alignment