Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   M2042_RS13535 Genome accession   NZ_AP023187
Coordinates   2827928..2829613 (+) Length   561 a.a.
NCBI ID   WP_104979679.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain HLBS-07     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2822928..2834613
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M2042_RS13515 (HLBS07_26080) pdhR 2824512..2825279 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  M2042_RS13520 (HLBS07_26090) ampD 2825685..2826236 (-) 552 WP_042521337.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  M2042_RS13525 (HLBS07_26100) nadC 2826329..2827216 (+) 888 WP_248525338.1 carboxylating nicotinate-nucleotide diphosphorylase -
  M2042_RS13530 (HLBS07_26110) - 2827478..2827921 (+) 444 WP_064354289.1 pilin -
  M2042_RS13535 (HLBS07_26120) pilB 2827928..2829613 (+) 1686 WP_104979679.1 type IV-A pilus assembly ATPase PilB Machinery gene
  M2042_RS25125 - 2829871..2830160 (+) 290 Protein_2548 type II secretion system F family protein -
  M2042_RS25130 pilC 2830392..2830859 (+) 468 WP_345892467.1 type II secretion system F family protein Machinery gene
  M2042_RS13545 (HLBS07_26150) pilD 2830924..2831793 (+) 870 WP_025768182.1 A24 family peptidase Machinery gene
  M2042_RS13550 (HLBS07_26160) coaE 2831794..2832408 (+) 615 WP_017635920.1 dephospho-CoA kinase -
  M2042_RS13555 (HLBS07_26170) zapD 2832436..2833176 (+) 741 WP_005373086.1 cell division protein ZapD -
  M2042_RS13560 (HLBS07_26180) yacG 2833335..2833529 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  M2042_RS13565 (HLBS07_26190) rplS 2834184..2834537 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62276.10 Da        Isoelectric Point: 5.5338

>NTDB_id=81540 M2042_RS13535 WP_104979679.1 2827928..2829613(+) (pilB) [Vibrio alginolyticus strain HLBS-07]
MLTNLSTILRQKGVLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELADHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTSSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRSLNHEKSGLKEINQEELAN
LVDVGVDEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLNLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=81540 M2042_RS13535 WP_104979679.1 2827928..2829613(+) (pilB) [Vibrio alginolyticus strain HLBS-07]
ATGTTAACAAACCTCTCAACCATTCTTCGTCAAAAAGGAGTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGTGAGCTCGCTGATCACTTAA
GTTCTCTCTTTGGTTTAAATCAGCCCGAGTTATCTCAGTACGAGTACGCTTCGCTTTGTCAACAACTCGGTCTACGTGAA
TTAATCACACGACATAACGCACTCCCACTCCAGCGTACGTCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAACCA
ACAAGCCGAAGATGACTTCCGCTTTGCCACTGGGTTACAGGTTGAACTAGTCTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTGTATGGTCGTTCATTGAATCATGAGAAGTCTGGATTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGTAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAGTCGCCCGTCAGCCGTTACATAAA
CCAAATTCTGCTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGTGTGCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTACCGACTCTATTCGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGCGGAAAAACCGTTTCTCTGTACACTGGGCTGAGTATCCTCAATAAGCCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCGGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACC
GCCGAAATCGCTATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTACATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAATTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTTGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGTAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGAATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCAGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
TTTTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(38-142)

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

90.196

100

0.902
  pilB Vibrio cholerae strain A1552

74.199

100

0.743
  pilB Acinetobacter baumannii D1279779

50.94

94.831

0.483
  pilB Legionella pneumophila strain ERS1305867

49.259

96.257

0.474
  pilB Acinetobacter baylyi ADP1

50.29

92.157

0.463
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

37.182

100

0.39
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.508

100

0.369
  pilF Thermus thermophilus HB27

36.121

100

0.362

Multiple sequence alignment