Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PAK23_RS03885 Genome accession   NZ_CP115817
Coordinates   843786..845483 (-) Length   565 a.a.
NCBI ID   WP_276488426.1    Uniprot ID   -
Organism   Pseudomonas mendocina strain GD22SC3150TT     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 838786..850483
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PAK23_RS03850 - 838852..839481 (-) 630 WP_276488422.1 DUF1780 domain-containing protein -
  PAK23_RS03855 - 839680..840369 (+) 690 WP_264146206.1 energy-coupling factor ABC transporter permease -
  PAK23_RS03860 - 840475..840690 (+) 216 WP_264146205.1 hypothetical protein -
  PAK23_RS03865 yacG 840727..840921 (-) 195 WP_264146204.1 DNA gyrase inhibitor YacG -
  PAK23_RS03870 coaE 840918..841526 (-) 609 WP_276488423.1 dephospho-CoA kinase -
  PAK23_RS03875 pilD 841692..842558 (-) 867 WP_276488424.1 A24 family peptidase Machinery gene
  PAK23_RS03880 pilC 842562..843782 (-) 1221 WP_276488425.1 type II secretion system F family protein Machinery gene
  PAK23_RS03885 pilB 843786..845483 (-) 1698 WP_276488426.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PAK23_RS03890 - 845715..845900 (+) 186 WP_276488427.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  PAK23_RS03895 - 845916..846383 (+) 468 WP_276488428.1 hypothetical protein -
  PAK23_RS03900 pilA 846445..846621 (+) 177 WP_276488429.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  PAK23_RS03905 - 846627..847442 (+) 816 WP_276488430.1 hypothetical protein -
  PAK23_RS03910 - 847465..848283 (+) 819 WP_276488431.1 hypothetical protein -
  PAK23_RS03915 - 848280..849191 (+) 912 WP_276488432.1 ABC transporter ATP-binding protein -
  PAK23_RS03920 nadC 849241..850089 (-) 849 WP_276488433.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 565 a.a.        Molecular weight: 62192.23 Da        Isoelectric Point: 5.4643

>NTDB_id=773803 PAK23_RS03885 WP_276488426.1 843786..845483(-) (pilB) [Pseudomonas mendocina strain GD22SC3150TT]
MSDTAQLTGLSRQLVNANLLDERAASQAFAQALRNKIPLVSYLVQNKLATSRALAEIASEQFGVPYFDLAAIDKDSQPRE
LISEKLCRQHRVLPLYRRGNKLFIALSDPTNHQAITDVQFSTGLSTDALLVEDDKLGDALDKFFDTGTSGMEELADVDLD
GLDVEAVNDDKDDAVGGDADDAPVVRFINKMLLDAIKGGSSDLHFEPYEKTYRVRFRTDGMLHEVARPPIQLASRLSARL
KVMAQLDISERRRPQDGRIKMKVSKTKAIDFRVNTLPTLWGEKIVMRILDPTSAQMGIDALGYEEEQKELYLTALKQPQG
MILVTGPTGSGKTVSLYTGLNILNTTDINISTAEDPVEINLEGINQVNVNPKHGMDFAQALRAFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPAFNIATSVNLIIAQRLARKLCSCKKEVELPRDALLKEGFPES
KIGTFKLYAPKGCDICKGGYKGRVGIYEVVKITPSLQRIIMEEGNSIEIAAQAKADGFNDLRTSGLLKAMQGITSLEEVN
RVTKD

Nucleotide


Download         Length: 1698 bp        

>NTDB_id=773803 PAK23_RS03885 WP_276488426.1 843786..845483(-) (pilB) [Pseudomonas mendocina strain GD22SC3150TT]
ATGAGCGACACCGCCCAACTGACCGGCCTCTCCCGCCAACTGGTCAATGCCAACCTGCTCGACGAGCGCGCCGCCAGCCA
GGCCTTCGCCCAGGCGCTGCGCAACAAGATTCCCCTGGTGTCCTACCTGGTGCAGAACAAGCTGGCCACCAGCCGCGCCC
TGGCCGAGATCGCCTCCGAGCAGTTCGGCGTGCCCTATTTCGACCTGGCGGCCATCGACAAGGACAGCCAGCCGCGCGAG
CTGATCAGCGAGAAGCTGTGCCGCCAGCACCGCGTGCTGCCGCTGTACCGCCGCGGCAACAAGCTGTTTATCGCCCTCTC
CGACCCCACCAACCACCAGGCCATCACCGACGTGCAGTTCAGCACCGGGCTGAGCACCGACGCCCTGCTGGTGGAGGACG
ACAAGCTGGGCGACGCCCTGGACAAGTTCTTCGACACCGGCACCAGCGGCATGGAAGAGCTGGCCGACGTCGACCTGGAC
GGGCTGGACGTGGAGGCGGTCAACGACGACAAGGACGACGCGGTCGGTGGCGACGCCGACGACGCGCCGGTGGTGCGTTT
TATCAACAAAATGCTGCTGGATGCCATCAAGGGCGGTTCATCCGACCTGCACTTCGAGCCGTACGAAAAAACCTACCGTG
TGCGCTTTCGTACCGACGGCATGCTGCATGAGGTGGCTCGCCCACCCATCCAGTTAGCCAGCCGCCTTTCCGCTCGCCTG
AAGGTCATGGCCCAACTGGATATTTCCGAACGGCGCAGGCCTCAGGACGGCCGCATCAAGATGAAGGTATCCAAGACCAA
GGCCATCGATTTTCGCGTCAACACCCTGCCCACCCTCTGGGGTGAGAAGATCGTGATGCGGATTCTTGATCCTACCAGTG
CACAGATGGGTATCGATGCCCTGGGTTATGAAGAGGAGCAGAAAGAGCTCTACCTGACGGCACTCAAACAGCCGCAAGGC
ATGATCCTGGTGACGGGCCCGACCGGTTCCGGAAAAACGGTATCGCTTTATACAGGCCTGAACATTCTCAACACCACAGA
CATCAACATTTCCACCGCGGAAGACCCGGTGGAAATCAACCTGGAAGGTATCAACCAGGTCAACGTCAACCCTAAGCACG
GCATGGACTTCGCCCAAGCCCTGCGCGCCTTCCTGCGTCAGGACCCGGACGTAATCATGGTCGGTGAGATTCGCGACCTG
GAGACGGCCGAGATCGCCATCAAGGCCGCCCAGACCGGACACATGGTGATGTCTACCCTGCACACCAACAGCGCCGCAGA
AACCCTGACTCGCCTACGCAACATGGGCGTGCCGGCCTTCAATATTGCTACTTCTGTGAACCTGATCATCGCCCAACGCC
TGGCGCGCAAACTCTGCAGTTGCAAGAAGGAAGTCGAGCTTCCACGCGATGCCTTGTTGAAAGAAGGCTTCCCTGAAAGC
AAGATTGGCACTTTCAAACTTTACGCCCCCAAGGGCTGCGACATTTGCAAAGGCGGCTACAAAGGAAGGGTGGGGATTTA
TGAAGTAGTTAAAATCACACCTTCCTTGCAACGCATTATCATGGAGGAAGGTAACTCCATTGAAATTGCCGCCCAGGCAA
AGGCCGACGGCTTCAATGACCTCCGAACTTCCGGGCTGCTCAAGGCGATGCAAGGCATCACCAGCCTGGAAGAAGTCAAC
CGCGTGACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(43-147)

Type II/IV secretion system protein (T2SSE)

(190-457)


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 Acinetobacter baumannii D1279779

59.578

100

0.6
  pilB Acinetobacter baylyi ADP1

59.147

99.646

0.589
  pilB Legionella pneumophila strain ERS1305867

54.77

100

0.549
  pilF Neisseria gonorrhoeae MS11

50.265

100

0.503
  pilB Vibrio campbellii strain DS40M4

50.179

99.115

0.497
  pilB Vibrio parahaemolyticus RIMD 2210633

52.731

93.982

0.496
  pilB Vibrio cholerae strain A1552

52.571

92.92

0.488
  pilF Thermus thermophilus HB27

37.388

98.938

0.37
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.504

92.743

0.366