Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LJY22_RS11725 Genome accession   NZ_CP085843
Coordinates   2575684..2577369 (+) Length   561 a.a.
NCBI ID   WP_257896953.1    Uniprot ID   -
Organism   Vibrio diabolicus strain NV27     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2570684..2582369
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LJY22_RS11705 (LJY22_11695) pdhR 2572264..2573031 (-) 768 WP_005396680.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  LJY22_RS11710 (LJY22_11700) ampD 2573437..2573988 (-) 552 WP_005396682.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  LJY22_RS11715 (LJY22_11705) nadC 2574081..2574968 (+) 888 WP_005379983.1 carboxylating nicotinate-nucleotide diphosphorylase -
  LJY22_RS11720 (LJY22_11710) pilA 2575231..2575680 (+) 450 WP_065645564.1 pilin Machinery gene
  LJY22_RS11725 (LJY22_11715) pilB 2575684..2577369 (+) 1686 WP_257896953.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LJY22_RS11730 (LJY22_11720) pilC 2577393..2578616 (+) 1224 WP_017635918.1 type II secretion system F family protein Machinery gene
  LJY22_RS11735 (LJY22_11725) pilD 2578681..2579550 (+) 870 WP_257896954.1 A24 family peptidase Machinery gene
  LJY22_RS11740 (LJY22_11730) coaE 2579551..2580165 (+) 615 WP_047008979.1 dephospho-CoA kinase -
  LJY22_RS11745 (LJY22_11735) zapD 2580193..2580933 (+) 741 WP_012841416.1 cell division protein ZapD -
  LJY22_RS11750 (LJY22_11740) yacG 2581081..2581275 (+) 195 WP_005396692.1 DNA gyrase inhibitor YacG -
  LJY22_RS11755 (LJY22_11745) rplS 2581953..2582306 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62209.18 Da        Isoelectric Point: 5.8446

>NTDB_id=620809 LJY22_RS11725 WP_257896953.1 2575684..2577369(+) (pilB) [Vibrio diabolicus strain NV27]
MLTNLSTVLRQKGLLTFSQEEALIEQVKASGISMPEALLSSGLFTSSELVEHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQIELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSKQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=620809 LJY22_RS11725 WP_257896953.1 2575684..2577369(+) (pilB) [Vibrio diabolicus strain NV27]
ATGTTAACCAACCTATCAACCGTTCTTCGCCAAAAAGGGTTACTGACATTTTCCCAAGAAGAAGCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTCACGTCAAGTGAACTGGTAGAGCACTTAA
GTTCTCTCTTTGGTTTAAATCAGCCCGAGTTATCTCAGTACGAGTATGCTTCGCTTTGTCAACAGCTCGGTCTACGTGAA
TTAATCACTCGACATAACGCACTCCCACTCCAGCGTACGCCTTCAACGTTGTTATTAGCCGTTGCCGACCCCACGAACCA
GCAAGCAGAAGATGACTTTCGTTTTGCGACTGGTTTACAGATTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAGAAGTCCGGGTTAAAAGAGATCAACCAAGAAGAGTTAGCCAAT
CTGGTTGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTTCGCC
TACGTTGCGATGGCATCTTAATCGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGACGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTACCTACTCTATTTGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCAAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGGCCAACCGGGAGCGGAAAAACCGTTTCTTTGTACACTGGATTGAGTATTCTCAATAAGCCAGAGATAAA
CATCTCCACAGCAGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTACAAGTACAACCCAAGATTGGTTTTG
GTTTTGCCGAAGCATTGCGCTCTTTTCTTCGTCAAGACCCCGATGTGGTCATGGTCGGTGAGATTCGTGACTTAGACACT
GCGGAAATCGCCATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTGCATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAGTTTGATTATTGCCCAGCGCTTAGCCC
GTAAACTGTGCTCGCACTGCAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTCGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGCAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
TTTTAA

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

95.365

100

0.954
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

74.555

100

0.747
  pilB Acinetobacter baumannii D1279779

51.048

93.583

0.478
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilB Acinetobacter baylyi ADP1

49.903

92.157

0.46
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

37.584

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.332

100

0.367
  pilF Thermus thermophilus HB27

36.929

97.504

0.36