Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   J4N39_RS12305 Genome accession   NZ_CP071848
Coordinates   2612893..2614569 (+) Length   558 a.a.
NCBI ID   WP_252019841.1    Uniprot ID   -
Organism   Vibrio sp. SCSIO 43136     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2607893..2619569
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J4N39_RS12285 (J4N39_12295) pdhR 2609606..2610373 (-) 768 WP_252019833.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  J4N39_RS12290 (J4N39_12300) ampD 2610667..2611212 (-) 546 WP_252019835.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  J4N39_RS12295 (J4N39_12305) nadC 2611373..2612260 (+) 888 WP_252019837.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J4N39_RS12300 (J4N39_12310) pilA 2612476..2612889 (+) 414 WP_252019839.1 pilin Machinery gene
  J4N39_RS12305 (J4N39_12315) pilB 2612893..2614569 (+) 1677 WP_252019841.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J4N39_RS12310 (J4N39_12320) pilC 2614577..2615800 (+) 1224 WP_252019849.1 type II secretion system F family protein Machinery gene
  J4N39_RS12315 (J4N39_12325) pilD 2615831..2616706 (+) 876 WP_252019851.1 A24 family peptidase Machinery gene
  J4N39_RS12320 (J4N39_12330) coaE 2616709..2617314 (+) 606 WP_252019857.1 dephospho-CoA kinase -
  J4N39_RS12325 (J4N39_12335) zapD 2617368..2618108 (+) 741 WP_252019859.1 cell division protein ZapD -
  J4N39_RS12330 (J4N39_12340) yacG 2618114..2618308 (+) 195 WP_252019861.1 DNA gyrase inhibitor YacG -
  J4N39_RS12335 (J4N39_12345) mutT 2618421..2618822 (-) 402 WP_252019863.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 558 a.a.        Molecular weight: 61511.13 Da        Isoelectric Point: 5.9189

>NTDB_id=548300 J4N39_RS12305 WP_252019841.1 2612893..2614569(+) (pilB) [Vibrio sp. SCSIO 43136]
MPNTLALVLNHAKLLNDQQLSSIIEYASSSKRSIFSSIVDLSIFTSEQLLQHISVLHGLPIVAIDPETSFALSNQLLLSK
LVIEHQALPISLSNGNLCIVVSDPTNNEIESDFAFASGCSITLSLADEADIQAKIRQLFGTQIEGEHQFHQEISSEELGE
FSSQASIEESQQPITQLDNAPVSRFIHQVITDAIRKGASDIHFEPFEKHYQVRIRCDGLLHAAHAPPPALAGRLAARLKI
LSNLDIAEKRLPQDGRIKLQLGTDKSVDIRLSTMPTLWGEKVVLRILDSSQVSLKLEDLGLNTNQYQNVQQALSRPQGMI
LVTGPTGSGKTITLYSSLNLLNTQSRNISTAEDPIEINLPGINQLQVEPKIGLHFSTALKAFLRQDPDVVMVGEIRDFET
AEIAIKASQTGHLVLSTLHTNSALETILRLKNMGIEGYHIAASLSLIIAQRLVRKLCRTCRVVDNQHYPELPTDRPVIYT
HSEQGCPECNGGYRGRTGVFEVLTFNEAIKNAIASDAHAADLKQLTQENQMCSLAESGYDKLIQGITSYQELKRVLYI

Nucleotide


Download         Length: 1677 bp        

>NTDB_id=548300 J4N39_RS12305 WP_252019841.1 2612893..2614569(+) (pilB) [Vibrio sp. SCSIO 43136]
ATGCCCAACACTCTCGCTCTAGTGTTGAACCATGCTAAGTTGCTGAATGATCAGCAACTTAGCTCAATCATCGAATATGC
GAGCTCATCAAAACGTAGTATTTTCTCTAGCATAGTAGATCTATCTATTTTTACATCGGAGCAGTTACTACAGCATATTT
CTGTTCTACATGGCCTACCCATAGTAGCCATAGATCCTGAAACTAGCTTTGCACTCAGTAACCAACTTCTCCTATCAAAG
TTGGTCATTGAGCATCAAGCTCTTCCAATATCACTTTCGAATGGTAACCTTTGTATTGTGGTCAGCGACCCTACAAATAA
TGAAATTGAAAGTGATTTTGCGTTTGCATCTGGCTGCAGTATTACTTTATCTCTAGCTGATGAAGCAGATATACAAGCTA
AAATACGCCAACTCTTCGGAACTCAAATTGAAGGGGAGCATCAATTTCATCAAGAGATATCTTCTGAAGAATTAGGTGAG
TTTTCTTCCCAAGCAAGTATTGAAGAGTCACAGCAGCCAATAACTCAATTAGACAACGCCCCAGTCAGCCGCTTCATCCA
CCAAGTCATCACCGACGCCATCCGCAAAGGTGCATCTGACATTCATTTCGAGCCGTTCGAAAAGCACTACCAAGTTCGGA
TTCGTTGTGATGGTCTATTGCACGCCGCCCACGCTCCCCCACCTGCGCTAGCGGGGCGACTTGCTGCACGGCTGAAGATC
CTTTCCAACCTAGATATTGCTGAAAAACGTCTGCCGCAAGATGGACGTATTAAGCTGCAGTTAGGGACGGACAAGTCGGT
TGATATTCGCCTCTCAACCATGCCGACCTTATGGGGTGAAAAGGTGGTGCTGCGAATTCTTGACAGCTCCCAAGTCAGCC
TCAAACTTGAAGACCTAGGTTTAAATACCAACCAATACCAAAATGTTCAGCAAGCCTTGAGTCGCCCGCAAGGGATGATA
CTGGTGACAGGCCCTACAGGCAGCGGTAAAACTATTACGCTTTATAGTAGTTTGAACTTACTCAACACCCAATCTCGCAA
CATTTCCACCGCCGAAGACCCCATTGAAATCAACTTACCGGGTATCAACCAGTTACAAGTTGAACCCAAGATTGGTCTAC
ATTTCTCAACCGCATTAAAAGCCTTTCTACGCCAAGACCCAGATGTGGTCATGGTGGGGGAAATACGTGATTTTGAAACA
GCAGAAATTGCGATAAAAGCGTCGCAAACAGGTCACTTAGTGCTTTCAACACTTCACACCAATTCAGCGCTTGAGACCAT
TCTTCGCCTCAAGAACATGGGCATCGAGGGTTATCATATTGCCGCTTCACTCAGCCTGATAATCGCTCAACGCTTAGTGC
GAAAACTTTGCCGCACTTGCCGAGTGGTGGATAACCAACACTATCCAGAACTACCTACTGATCGGCCCGTCATCTATACC
CATTCAGAGCAAGGTTGCCCTGAGTGTAACGGTGGGTATCGAGGTCGAACGGGCGTTTTTGAGGTGCTGACTTTTAATGA
AGCGATTAAAAACGCCATCGCATCTGATGCTCATGCTGCCGACTTAAAACAGCTCACACAAGAAAACCAAATGTGCTCCC
TTGCCGAGTCTGGTTACGACAAGCTGATACAAGGCATCACCAGCTATCAAGAGCTCAAACGAGTGCTCTATATCTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(41-142)


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

51.95

100

0.525
  pilB Vibrio cholerae strain A1552

51.15

100

0.518
  pilB Vibrio campbellii strain DS40M4

50.887

100

0.514
  pilB Legionella pneumophila strain ERS1305867

43.92

98.746

0.434
  pilB Acinetobacter baumannii D1279779

42.831

97.491

0.418
  pilB Acinetobacter baylyi ADP1

41.667

98.925

0.412
  pilB Haemophilus influenzae Rd KW20

41.875

86.022

0.36
  pilF Thermus thermophilus HB27

37.853

95.161

0.36
  pilB Haemophilus influenzae 86-028NP

41.701

86.38

0.36