Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   CD58_RS24305 Genome accession   NZ_CP007410
Coordinates   5676176..5677876 (+) Length   566 a.a.
NCBI ID   WP_025215525.1    Uniprot ID   -
Organism   Pseudomonas brassicacearum strain DF41     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5671176..5682876
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CD58_RS24285 (CD58_25245) - 5671288..5674221 (+) 2934 WP_025215521.1 DUF748 domain-containing protein -
  CD58_RS24290 (CD58_25250) - 5674223..5674519 (+) 297 WP_025215522.1 DUF2845 domain-containing protein -
  CD58_RS24295 (CD58_25255) - 5674857..5675210 (-) 354 WP_025215523.1 BON domain-containing protein -
  CD58_RS24300 (CD58_25260) - 5675522..5675950 (-) 429 WP_025215524.1 pilin -
  CD58_RS24305 (CD58_25265) pilB 5676176..5677876 (+) 1701 WP_025215525.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CD58_RS24310 (CD58_25270) pilC 5677879..5679096 (+) 1218 WP_025215526.1 type II secretion system F family protein Machinery gene
  CD58_RS24315 (CD58_25275) pilD 5679098..5679967 (+) 870 WP_025215527.1 prepilin peptidase Machinery gene
  CD58_RS24320 (CD58_25280) coaE 5679980..5680603 (+) 624 WP_025215528.1 dephospho-CoA kinase -
  CD58_RS24325 (CD58_25285) yacG 5680600..5680806 (+) 207 WP_025215529.1 DNA gyrase inhibitor YacG -
  CD58_RS24330 (CD58_25290) - 5680827..5681042 (-) 216 WP_003185533.1 hypothetical protein -
  CD58_RS24335 (CD58_25295) - 5681106..5681792 (-) 687 WP_025215530.1 energy-coupling factor ABC transporter permease -
  CD58_RS24340 (CD58_25300) - 5682024..5682650 (+) 627 WP_025215531.1 DUF1780 domain-containing protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62750.79 Da        Isoelectric Point: 5.5527

>NTDB_id=119271 CD58_RS24305 WP_025215525.1 5676176..5677876(+) (pilB) [Pseudomonas brassicacearum strain DF41]
MNDIALSGLTKQLVLAELITEQSAQQAYQQAQRSRMPLVSYLVQNKLVQSRQVAEIASEHFGVALLDLNSLDRDTQPIGL
VSEKLVRQHHALPLWRRGNKLFVGISDPTNHQAINDIQFSTGLTTEAILVEDDKLSDAIEKFFESSSTGLEGMGDVDLDG
LDIESIDDSKQDSIGGQDVDDAPVVRFVNKMLLDAIKGGSSDLHFEPYEKTYRVRVRTDGMLREVAKPPIQLATRIAARL
KVMASLDISERRKPQDGRLKMRLSKNKSIDFRVNTLPTLWGEKVVIRILDPSSAQMGIDALGYEPEQKDLYMAALKQPQG
LILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPRQGLDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAETLIRLQNMGIPGFNIATAVHLIIAQRLARKLCTHCKKAIEIPEETLLKEGFPR
ERIGTFTIYEPVGCEQCNHGYKGRVGVYEVVKNTPELQRLIMAEGNSLEIDLQMRKDGFNDLRTSGLHKVMQGVTSLEEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=119271 CD58_RS24305 WP_025215525.1 5676176..5677876(+) (pilB) [Pseudomonas brassicacearum strain DF41]
ATGAATGACATCGCCCTCAGCGGCCTGACCAAACAATTGGTGCTGGCCGAACTGATCACGGAGCAAAGTGCGCAGCAGGC
GTACCAACAGGCCCAGCGCAGTCGCATGCCCCTGGTCAGTTACCTGGTGCAAAACAAACTGGTCCAGAGCCGTCAGGTGG
CGGAAATCGCCTCGGAGCATTTCGGCGTCGCCCTGCTGGACCTCAACAGCCTGGACAGGGACACCCAGCCCATCGGCCTG
GTCAGCGAAAAACTGGTGCGCCAACATCACGCCCTGCCCCTGTGGCGGCGCGGCAACAAGTTGTTCGTGGGCATCTCCGA
CCCGACCAATCACCAGGCCATCAATGACATTCAATTCAGTACCGGCCTGACCACCGAAGCCATTCTGGTGGAGGACGACA
AGCTCAGCGACGCCATCGAAAAGTTTTTCGAATCCAGTAGCACGGGCCTGGAAGGCATGGGCGATGTCGACCTGGACGGC
CTGGACATCGAATCGATCGACGATTCCAAGCAGGATTCCATCGGCGGCCAGGACGTCGACGATGCGCCGGTGGTGCGCTT
CGTCAACAAGATGTTGCTGGACGCGATCAAGGGCGGCTCTTCCGACCTGCATTTCGAGCCCTATGAAAAAACCTACCGGG
TGCGGGTGCGCACCGACGGCATGCTGCGGGAAGTGGCCAAGCCACCGATCCAGTTGGCCACCCGCATCGCCGCACGCCTC
AAGGTCATGGCCAGCCTCGATATCTCCGAACGGCGCAAACCCCAGGACGGGCGGCTGAAAATGCGCCTGTCGAAAAACAA
ATCCATCGACTTCCGGGTCAACACCCTGCCTACGCTCTGGGGCGAGAAGGTGGTAATCCGGATCCTCGATCCCTCCAGTG
CGCAAATGGGCATCGATGCCCTGGGCTACGAGCCGGAACAGAAAGACCTGTACATGGCGGCCCTCAAACAGCCACAAGGG
CTGATCCTGGTGACCGGGCCGACCGGTTCGGGCAAGACCGTGTCGCTGTACACCGGGCTGAATATCCTCAACACCGTGGA
CATCAACATTTCCACCGCCGAAGACCCGGTGGAGATCAACATGGAGGGCATCAACCAGGTCAACGTGAACCCGCGCCAGG
GGCTGGATTTCGCCCAGGCCCTGCGCTCGTTCCTGCGCCAGGACCCGGATGTGATCATGGTCGGCGAGATCCGCGACCTG
GAAACCGCCGAAATCGCCATCAAGGCCGCCCAGACCGGGCACTTGGTGCTCTCCACGCTGCACACCAACAGCGCCGCCGA
AACCCTGATCCGCCTACAGAACATGGGTATTCCGGGCTTCAACATCGCCACGGCGGTGCACCTGATCATCGCCCAACGGC
TGGCGCGCAAGCTGTGCACCCACTGCAAGAAAGCCATCGAGATTCCCGAGGAAACCCTGCTCAAGGAAGGTTTCCCCCGG
GAACGCATCGGCACATTCACGATCTATGAGCCGGTCGGTTGTGAACAGTGCAACCATGGTTACAAAGGGCGCGTGGGGGT
CTACGAAGTGGTCAAGAACACGCCCGAACTGCAGCGGTTGATCATGGCCGAGGGCAACTCGCTGGAAATCGACCTGCAGA
TGCGCAAAGACGGTTTCAACGACCTACGTACCTCGGGGTTGCACAAAGTGATGCAAGGCGTCACCAGCCTCGAGGAAATC
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

56.915

99.647

0.567
  pilB Legionella pneumophila strain ERS1305867

55.282

100

0.555
  pilB Vibrio cholerae strain A1552

50.794

100

0.509
  pilB Vibrio campbellii strain DS40M4

48.601

100

0.491
  pilB Vibrio parahaemolyticus RIMD 2210633

48.925

98.587

0.482
  pilF Neisseria gonorrhoeae MS11

48.313

99.47

0.481

Multiple sequence alignment