Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PBDP_RS25305 Genome accession   NZ_AP014703
Coordinates   5784683..5786383 (+) Length   566 a.a.
NCBI ID   WP_109756360.1    Uniprot ID   -
Organism   Pseudomonas sp. St290     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5779683..5791383
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PBDP_RS25285 (PBDP_4995) - 5779886..5782819 (+) 2934 WP_212801465.1 DUF748 domain-containing protein -
  PBDP_RS25290 (PBDP_4996) - 5782820..5783116 (+) 297 WP_109756358.1 DUF2845 domain-containing protein -
  PBDP_RS25295 (PBDP_4997) - 5783428..5783781 (-) 354 WP_109756359.1 BON domain-containing protein -
  PBDP_RS25300 (PBDP_4998) pilA 5784049..5784459 (-) 411 WP_109756404.1 pilin Machinery gene
  PBDP_RS25305 (PBDP_4999) pilB 5784683..5786383 (+) 1701 WP_109756360.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PBDP_RS25310 (PBDP_5000) pilC 5786386..5787603 (+) 1218 WP_109756361.1 type II secretion system F family protein Machinery gene
  PBDP_RS25315 (PBDP_5001) pilD 5787605..5788474 (+) 870 WP_212801466.1 A24 family peptidase Machinery gene
  PBDP_RS25320 (PBDP_5002) coaE 5788474..5789097 (+) 624 WP_212801467.1 dephospho-CoA kinase -
  PBDP_RS25325 (PBDP_5003) yacG 5789094..5789300 (+) 207 WP_109756364.1 DNA gyrase inhibitor YacG -
  PBDP_RS25330 (PBDP_5004) - 5789297..5789512 (-) 216 WP_013694234.1 hypothetical protein -
  PBDP_RS25335 (PBDP_5005) - 5789576..5790262 (-) 687 WP_163856590.1 energy-coupling factor ABC transporter permease -
  PBDP_RS25340 (PBDP_5006) - 5790408..5791034 (+) 627 WP_003205682.1 DUF1780 domain-containing protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62737.78 Da        Isoelectric Point: 5.4307

>NTDB_id=66849 PBDP_RS25305 WP_109756360.1 5784683..5786383(+) (pilB) [Pseudomonas sp. St290]
MNDIALSGLTKQLVLAELLTEQSAQQAYQQAQRSRIPLVSYLVQNKLVQSRQVAEIASEHFGVALLDLNSLDKETQPTGL
VSEKLVRQHHALPLWRRGNKLFVGISDPTNHQAINDIQFSTGLTTEAILVEDDKLSDAIEKFFESSSTGLEGMGDVDLDG
LDIESIDDTKQDSIAGQDTDDAPVVRFVNKMLLDAIKGGSSDLHFEPYEKIYRVRVRTDGMLREVARPPIQLANRIAARL
KVMASLDISERRKPQDGRLKMRLSKSKSIDFRVNTLPTLWGEKVVIRILDPSSAQMGIDALGYEPDQKDLYMAALKQPQG
LILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPRQGLDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAETLIRLQNMGIPGFNIATAVHLIIAQRLARKLCNHCKKAIEIPEETLLKEGFPR
ERIGTFTIYEPVGCEQCNHGYKGRVGVYEVVKNTPELQRLIMAEGNSLEIDLQMRKDGFNDLRTSGLLKVMQGVTSLEEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=66849 PBDP_RS25305 WP_109756360.1 5784683..5786383(+) (pilB) [Pseudomonas sp. St290]
ATGAATGACATCGCCCTCAGCGGCCTGACCAAGCAATTGGTACTGGCCGAACTGCTCACCGAGCAAAGCGCGCAACAGGC
GTATCAACAGGCCCAGCGCAGTCGCATACCCCTGGTCAGTTATCTGGTACAGAACAAACTGGTCCAGAGCCGCCAGGTCG
CGGAAATCGCCTCGGAGCACTTCGGCGTCGCCCTACTCGACCTCAACAGCCTGGACAAGGAAACCCAGCCCACAGGCCTG
GTCAGCGAAAAACTGGTGCGCCAGCATCACGCCCTGCCGCTGTGGCGACGAGGCAACAAATTGTTCGTGGGCATCTCCGA
CCCCACCAATCACCAGGCCATCAATGACATCCAGTTCAGCACCGGCCTGACCACCGAAGCCATCCTGGTGGAGGACGACA
AGCTCAGCGACGCCATCGAAAAGTTCTTCGAATCCAGTAGCACAGGCCTGGAAGGCATGGGCGATGTCGACCTCGATGGC
CTGGACATCGAATCGATCGACGATACCAAACAGGATTCCATCGCCGGCCAGGACACCGACGACGCGCCCGTGGTGCGCTT
CGTCAACAAGATGCTGCTGGACGCGATCAAGGGCGGCTCTTCCGACCTGCACTTCGAGCCCTATGAAAAAATCTACCGGG
TGCGGGTGCGCACCGACGGCATGCTGCGGGAAGTCGCCAGGCCGCCGATCCAACTGGCCAACCGTATCGCCGCGCGCCTG
AAAGTCATGGCCAGCCTCGATATTTCCGAACGACGCAAACCCCAGGACGGACGCCTGAAAATGCGCCTGTCGAAAAGCAA
ATCCATCGATTTCCGGGTCAACACCCTGCCCACCCTCTGGGGCGAAAAAGTGGTGATCCGGATCCTCGACCCGTCCAGCG
CGCAAATGGGCATCGATGCCCTGGGCTACGAACCGGACCAGAAAGACCTGTACATGGCGGCCCTCAAGCAACCGCAAGGG
CTGATCCTGGTGACCGGGCCGACCGGCTCGGGCAAGACCGTATCGCTGTACACCGGGCTGAATATCCTCAACACCGTGGA
CATCAACATTTCCACCGCTGAAGACCCGGTGGAGATCAACATGGAAGGCATCAACCAGGTCAACGTGAACCCACGCCAGG
GGCTGGATTTCGCCCAGGCCCTGCGTTCGTTCCTGCGCCAGGACCCGGACGTGATCATGGTCGGCGAGATCCGCGACCTG
GAAACCGCCGAGATTGCCATCAAGGCCGCCCAGACCGGGCACCTGGTGCTCTCCACACTGCACACCAACAGCGCCGCCGA
AACCCTGATCCGCCTGCAGAACATGGGCATTCCAGGGTTCAACATCGCCACCGCCGTGCACCTGATCATCGCCCAGCGGC
TGGCGCGCAAGTTGTGCAACCACTGCAAGAAGGCCATCGAGATCCCCGAAGAGACCTTGCTCAAGGAAGGCTTCCCCCGG
GAACGCATCGGCACATTCACGATCTATGAGCCGGTCGGTTGCGAACAGTGCAACCATGGTTACAAAGGGCGCGTGGGGGT
CTACGAAGTGGTCAAGAACACGCCCGAGCTGCAGCGATTGATCATGGCCGAGGGCAACTCGCTGGAAATCGATCTGCAAA
TGCGCAAGGACGGTTTCAATGACCTGCGTACATCGGGGCTGCTCAAAGTGATGCAGGGCGTCACCAGCCTCGAAGAAATC
AACCGGGTCACCAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(190-457)

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

(42-147)


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 baylyi ADP1

58.127

100

0.581
  pilB Acinetobacter baumannii D1279779

57.447

99.647

0.572
  pilB Legionella pneumophila strain ERS1305867

55.556

100

0.557
  pilB Vibrio cholerae strain A1552

50.442

99.823

0.504
  pilB Vibrio campbellii strain DS40M4

48.772

100

0.491
  pilB Vibrio parahaemolyticus RIMD 2210633

49.101

98.233

0.482
  pilF Neisseria gonorrhoeae MS11

48.313

99.47

0.481
  pilF Thermus thermophilus HB27

36.042

100

0.36

Multiple sequence alignment