Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   J4N43_RS02890 Genome accession   NZ_CP071842
Coordinates   592853..594538 (-) Length   561 a.a.
NCBI ID   WP_158159767.1    Uniprot ID   -
Organism   Vibrio sp. SCSIO 43009     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 587853..599538
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J4N43_RS02860 (J4N43_02855) rplS 587928..588281 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  J4N43_RS02865 (J4N43_02860) yacG 588936..589130 (-) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  J4N43_RS02870 (J4N43_02865) zapD 589289..590029 (-) 741 WP_005373086.1 cell division protein ZapD -
  J4N43_RS02875 (J4N43_02870) coaE 590057..590671 (-) 615 WP_158159769.1 dephospho-CoA kinase -
  J4N43_RS02880 (J4N43_02875) pilD 590672..591541 (-) 870 WP_158159768.1 A24 family peptidase Machinery gene
  J4N43_RS02885 (J4N43_02880) pilC 591606..592829 (-) 1224 WP_017635918.1 type II secretion system F family protein Machinery gene
  J4N43_RS02890 (J4N43_02885) pilB 592853..594538 (-) 1686 WP_158159767.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J4N43_RS02895 (J4N43_02890) pilA 594538..594966 (-) 429 WP_050912911.1 pilin Machinery gene
  J4N43_RS02900 (J4N43_02895) nadC 595232..596119 (-) 888 WP_158159766.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J4N43_RS02905 (J4N43_02900) ampD 596212..596763 (+) 552 WP_042521337.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  J4N43_RS02910 (J4N43_02905) pdhR 597169..597936 (+) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62076.89 Da        Isoelectric Point: 5.1968

>NTDB_id=548202 J4N43_RS02890 WP_158159767.1 592853..594538(-) (pilB) [Vibrio sp. SCSIO 43009]
MLTNLSTVLRQAGILTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTSSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRALGQEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=548202 J4N43_RS02890 WP_158159767.1 592853..594538(-) (pilB) [Vibrio sp. SCSIO 43009]
ATGCTAACCAACCTCTCAACGGTTCTTCGCCAAGCAGGAATACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GTTCTCTCTTTGGTTTAAATCAGCCCGAGTTATCTCAGTACGAGTATGCTTCGCTTTGTCAGCAACTTGGCCTTAGGGAA
TTAATCACGCGGCATAACGCACTCCCACTCCAGCGTACGTCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAACCA
ACAAGCAGAAGATGACTTTCGTTTTGCGACAGGATTGCAAGTAGAACTTGTTCTCGCTGATTTTCGCGAGCTGACCGCTG
CGATTCGGCGCTTATATGGCCGCGCACTTGGGCAAGAAAAGTCTGGGCTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGCGTGCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTGAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTGCCTACTCTATTTGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACTGGAAGCGGGAAAACCGTTTCTCTGTACACTGGGCTGAGTATTCTCAATAAACCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTTCTTCGTCAAGACCCCGATGTGGTCATGGTCGGTGAGATTCGTGACTTAGACACT
GCGGAAATCGCCATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTGCATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAGTTTGATTATTGCCCAGCGCTTAGCCC
GTAAACTGTGCTCGCACTGCAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTCGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGCAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCGTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
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)

(38-142)


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

95.009

100

0.95
  pilB Vibrio campbellii strain DS40M4

91.444

100

0.914
  pilB Vibrio cholerae strain A1552

74.377

100

0.745
  pilB Acinetobacter baumannii D1279779

51.619

93.583

0.483
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilB Acinetobacter baylyi ADP1

50.29

92.157

0.463
  pilF Neisseria gonorrhoeae MS11

44.326

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

37.838

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.684

100

0.371
  pilF Thermus thermophilus HB27

36.299

100

0.364