Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   L1F06_RS04025 Genome accession   NZ_CP099397
Coordinates   881487..883190 (-) Length   567 a.a.
NCBI ID   WP_129482851.1    Uniprot ID   -
Organism   Pseudomonas hydrolytica strain DSWY01     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 876487..888190
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L1F06_RS03990 (L1F06_003990) - 876594..877223 (-) 630 WP_003242718.1 DUF1780 domain-containing protein -
  L1F06_RS03995 (L1F06_003995) - 877350..878039 (+) 690 WP_011920933.1 energy-coupling factor ABC transporter permease -
  L1F06_RS04000 (L1F06_004000) - 878146..878361 (+) 216 WP_003242722.1 hypothetical protein -
  L1F06_RS04005 (L1F06_004005) yacG 878414..878608 (-) 195 WP_003242724.1 DNA gyrase inhibitor YacG -
  L1F06_RS04010 (L1F06_004010) coaE 878605..879213 (-) 609 WP_129482849.1 dephospho-CoA kinase -
  L1F06_RS04015 (L1F06_004015) pilD 879381..880250 (-) 870 WP_129482850.1 A24 family peptidase Machinery gene
  L1F06_RS04020 (L1F06_004020) - 880257..881482 (-) 1226 Protein_797 type II secretion system F family protein -
  L1F06_RS04025 (L1F06_004025) pilB 881487..883190 (-) 1704 WP_129482851.1 type IV-A pilus assembly ATPase PilB Machinery gene
  L1F06_RS24905 - 883419..883760 (+) 342 WP_129482852.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  L1F06_RS24910 - 883889..884221 (+) 333 WP_129482853.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  L1F06_RS04040 (L1F06_004040) nadC 884223..885071 (-) 849 WP_129482854.1 carboxylating nicotinate-nucleotide diphosphorylase -
  L1F06_RS04045 (L1F06_004045) - 885498..887798 (+) 2301 WP_129482855.1 DUF1631 domain-containing protein -

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62250.20 Da        Isoelectric Point: 5.4752

>NTDB_id=699473 L1F06_RS04025 WP_129482851.1 881487..883190(-) (pilB) [Pseudomonas hydrolytica strain DSWY01]
MNEAISLSGLAKQLVTAQLLDEKSALQAQAQAKRNQVPLVTYLVQSKLAKGRDLAELASEQFGVAFVDLTAVDKEGQPKE
LISEKLIRQHRAIPLWRRGNKLFIGVSDPTNHQAVTDIQFSTGLNTEAVLVEDDKLGDAIERFFESANSGMEDLGDVDLD
GLDVEAVDDDKNDTSTGGDADDAPVVRFVNKMLLDAIRMGSSDLHFEPYEKAYRVRFRTDGILHEVARPPIQLSPRIAAR
LKVMAALDISERRKPQDGRIKMKISKSKAIDFRVNTLPTLWGEKIVMRILDPTSAQMGIDALGYEESQKELYMNALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTPDVNISTAEDPVEINLEGINQVNVNPKQGMDFTAALRAFLRQDPDIIMVGEIRD
LDTASIAVKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPSFNIATSVNLIIAQRLARKLCNSCKKEVDVPRETLLAEGFP
EGKIGTFKLYGPAGCENCKNGYKGRVGIYEVVKNTPNLQRIIMEEGNSIDIAAQMRKDGFNDLRASGLLKAMQGVTSLEE
INRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=699473 L1F06_RS04025 WP_129482851.1 881487..883190(-) (pilB) [Pseudomonas hydrolytica strain DSWY01]
ATGAACGAAGCGATTTCCCTTTCTGGACTAGCAAAGCAGCTGGTTACCGCTCAATTGCTAGATGAGAAAAGCGCCCTACA
GGCCCAAGCACAGGCCAAGCGCAATCAGGTGCCACTGGTAACCTACCTAGTACAAAGCAAGCTAGCTAAAGGCCGCGACC
TGGCAGAGCTAGCATCTGAGCAGTTTGGCGTGGCGTTTGTTGATCTCACCGCCGTCGACAAAGAAGGTCAACCTAAAGAG
TTAATAAGTGAGAAATTGATTCGCCAGCACCGTGCGATACCACTATGGCGGCGCGGCAACAAGCTCTTTATCGGCGTTTC
CGATCCTACCAACCATCAGGCAGTTACCGATATTCAGTTCAGCACTGGCCTGAATACTGAAGCCGTGCTGGTTGAGGATG
ACAAGCTGGGCGATGCCATCGAAAGGTTCTTCGAAAGCGCCAACAGCGGCATGGAGGACTTGGGCGATGTAGATCTGGAC
GGCCTGGATGTGGAGGCGGTCGACGACGACAAGAACGACACATCCACTGGAGGCGATGCTGATGATGCCCCGGTGGTGCG
CTTCGTCAACAAGATGCTGCTTGACGCCATCCGCATGGGCTCCTCCGATCTGCACTTCGAGCCATACGAAAAGGCCTACC
GGGTGCGCTTCCGTACCGACGGCATTCTGCATGAGGTTGCTCGCCCTCCCATCCAGCTATCGCCACGGATTGCCGCACGC
CTCAAGGTAATGGCCGCTCTGGATATCTCCGAACGGCGAAAGCCTCAAGACGGCCGAATCAAGATGAAGATATCCAAAAG
CAAGGCCATCGACTTTCGTGTCAACACCCTGCCCACCCTGTGGGGCGAAAAGATCGTGATGCGGATTCTCGATCCCACCA
GTGCGCAGATGGGTATCGACGCACTGGGATATGAGGAAAGCCAGAAAGAGCTGTATATGAATGCGCTCAAGCAGCCACAG
GGCATGATCCTGGTAACCGGCCCCACAGGGTCGGGCAAAACGGTTTCGCTCTATACCGGCCTGAATATCCTCAATACCCC
AGACGTGAATATCTCCACCGCCGAAGACCCGGTGGAGATCAACTTGGAAGGCATCAATCAGGTCAACGTCAACCCAAAGC
AGGGCATGGATTTCACGGCAGCGCTACGCGCCTTCCTACGCCAGGACCCGGACATCATCATGGTGGGAGAGATCCGCGAC
CTGGACACTGCTTCCATCGCAGTGAAAGCGGCGCAGACCGGCCATATGGTGATGTCCACCCTGCATACCAACAGCGCCGC
GGAAACCCTGACCCGCCTGCGCAATATGGGCGTGCCCTCGTTCAATATCGCCACCTCGGTCAACCTGATCATCGCTCAGC
GCCTGGCGCGCAAGCTGTGTAATAGCTGCAAGAAAGAAGTGGATGTGCCCCGTGAAACCCTTCTGGCAGAGGGCTTCCCC
GAAGGAAAGATCGGCACCTTCAAGCTCTACGGGCCGGCCGGCTGCGAAAACTGCAAGAATGGCTACAAGGGTCGTGTCGG
TATTTATGAAGTGGTTAAAAACACGCCCAACCTGCAACGGATTATCATGGAGGAAGGCAACTCCATCGATATTGCAGCGC
AAATGCGCAAAGATGGCTTTAATGATTTGCGTGCCTCCGGCCTGCTCAAAGCCATGCAAGGCGTGACCAGCCTGGAGGAA
ATCAACCGCGTGACCAAGGATTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

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

(43-147)


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 baumannii D1279779

59.22

99.471

0.589
  pilB Acinetobacter baylyi ADP1

58.025

100

0.58
  pilB Legionella pneumophila strain ERS1305867

54.816

100

0.552
  pilB Vibrio cholerae strain A1552

50.534

99.118

0.501
  pilB Vibrio parahaemolyticus RIMD 2210633

51.296

95.238

0.489
  pilB Vibrio campbellii strain DS40M4

48.85

99.647

0.487
  pilF Neisseria gonorrhoeae MS11

48.673

99.647

0.485
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.887

93.298

0.372
  pilF Thermus thermophilus HB27

37.843

96.473

0.365