Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PSm6_RS15745 Genome accession   NZ_AP023081
Coordinates   3458906..3460609 (-) Length   567 a.a.
NCBI ID   WP_265167710.1    Uniprot ID   -
Organism   Pseudomonas solani strain Sm006     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 3454527..3463043 3458906..3460609 within 0


Gene organization within MGE regions


Location: 3454527..3463043
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSm6_RS15710 (PSm6_31560) - 3454527..3454994 (+) 468 WP_265167703.1 FAD/FMN-containing dehydrogenase -
  PSm6_RS15715 (PSm6_31570) - 3454991..3455677 (+) 687 WP_265167704.1 energy-coupling factor ABC transporter permease -
  PSm6_RS15720 (PSm6_31580) - 3455785..3456000 (+) 216 WP_265167705.1 hypothetical protein -
  PSm6_RS15725 (PSm6_31590) yacG 3456004..3456204 (-) 201 WP_265167706.1 DNA gyrase inhibitor YacG -
  PSm6_RS15730 (PSm6_31600) coaE 3456201..3456812 (-) 612 WP_265167707.1 dephospho-CoA kinase -
  PSm6_RS15735 (PSm6_31610) pilD 3456812..3457681 (-) 870 WP_265167708.1 A24 family peptidase Machinery gene
  PSm6_RS15740 (PSm6_31620) pilC 3457682..3458902 (-) 1221 WP_265167709.1 type II secretion system F family protein Machinery gene
  PSm6_RS15745 (PSm6_31630) pilB 3458906..3460609 (-) 1704 WP_265167710.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSm6_RS15750 (PSm6_31640) pilA 3460735..3461160 (-) 426 WP_265167711.1 pilin Machinery gene
  PSm6_RS15755 - 3461316..3463043 (+) 1728 WP_265167712.1 Wzy polymerase domain-containing protein -

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62510.58 Da        Isoelectric Point: 5.3523

>NTDB_id=81216 PSm6_RS15745 WP_265167710.1 3458906..3460609(-) (pilB) [Pseudomonas solani strain Sm006]
MNDSINLSGLAKQMVLAELMDEKSAQQAQLQAQRNKLSLVTYLVQNKLVKSRALAELSAEQFGVAFFDLGAIDKEGQPKE
LISEKLIRQHRVIPLWRRGNKLFVGVSDPTNHQAVTDIQFSTGLTTEAILVEDDKLGDAIEKFFDNASSGMEDLGDVDLD
GVDIEAVDDDKQDSGTGESADDAPVVRFVNKMLLDAIKGGSSDLHFEPYERSYRVRLRTDGILHEVARPPIQLASRISAR
LKVMAALDISERRKPQDGRIKMKISKTKAIDFRVNTLPTLWGEKIVMRILDPSSAQMGIDALGYEEVQKELYLNALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGMDFAQALRAFLRQDPDVIMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPAFNIATSVNLIIAQRLARKLCNTCKKEVEVPRDTLIKEGFP
EDKIGTFKIFGPVGCDNCKGGYKGRVGIYEVVKNTPSLQRIIMEEGNSIDIAAQMRKDGFNDLRNSGLLKAMQGVTSLEE
VNRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=81216 PSm6_RS15745 WP_265167710.1 3458906..3460609(-) (pilB) [Pseudomonas solani strain Sm006]
ATGAATGACAGCATAAATCTTTCCGGCTTGGCCAAGCAGATGGTCCTCGCAGAGCTGATGGACGAAAAAAGTGCTCAGCA
GGCGCAACTGCAAGCCCAGCGCAACAAGCTTTCTCTGGTTACGTACCTAGTACAGAACAAGCTGGTAAAAAGCAGGGCGC
TTGCGGAGCTGTCCGCCGAGCAATTTGGGGTCGCTTTCTTCGATTTGGGCGCGATCGATAAGGAAGGTCAGCCAAAAGAG
CTGATCAGCGAGAAGCTGATCCGCCAGCATCGCGTGATACCGCTGTGGCGTAGAGGCAACAAGCTGTTCGTCGGGGTTTC
CGATCCCACCAACCACCAAGCAGTCACCGACATCCAGTTCAGTACCGGCCTTACTACAGAGGCAATTCTGGTTGAGGATG
ACAAACTGGGCGATGCCATCGAGAAATTCTTCGATAACGCCAGCTCCGGCATGGAGGACCTCGGTGACGTCGATCTGGAC
GGCGTTGATATAGAAGCGGTCGATGACGACAAGCAAGACAGCGGTACAGGCGAGAGCGCCGATGACGCCCCGGTCGTACG
CTTCGTCAATAAAATGCTGCTGGACGCCATCAAGGGCGGCTCTTCCGACTTGCACTTCGAGCCCTACGAGCGTTCGTACC
GGGTCAGGCTACGTACCGATGGTATCCTCCACGAAGTAGCGCGCCCACCGATCCAACTGGCCAGCCGCATTTCCGCACGC
TTGAAGGTCATGGCAGCCCTGGATATTTCCGAACGTCGCAAGCCTCAGGACGGCCGGATCAAGATGAAGATATCCAAGAC
CAAGGCCATCGACTTTCGCGTCAACACGCTGCCCACACTCTGGGGCGAAAAGATCGTGATGCGGATCCTTGACCCATCCA
GCGCCCAGATGGGTATCGATGCCCTTGGTTATGAGGAAGTGCAAAAAGAGCTCTATCTGAACGCCTTGAAACAGCCCCAG
GGCATGATTCTGGTGACTGGCCCTACGGGTTCGGGCAAGACAGTTTCGCTCTACACCGGCCTCAATATTCTTAATACCGT
CGATATCAACATCTCCACAGCCGAAGATCCTGTGGAAATCAACCTGGAAGGCATCAACCAGGTCAACGTCAACCCACGTC
AAGGCATGGACTTCGCCCAGGCCCTTCGTGCCTTCTTGCGTCAGGACCCGGACGTGATCATGGTTGGCGAAATTCGAGAC
CTTGAAACGGCTGAAATCGCCATCAAGGCAGCCCAGACCGGGCACATGGTGATGTCCACCTTGCACACCAACAGCGCTGC
GGAAACCTTGACCCGTCTTCGCAATATGGGTGTTCCAGCGTTCAACATCGCAACCTCAGTCAACCTGATCATTGCCCAGC
GCCTCGCCCGAAAGCTCTGCAACACCTGCAAAAAGGAAGTCGAGGTTCCCCGCGATACGCTCATCAAAGAAGGCTTTCCC
GAAGACAAGATCGGGACCTTCAAGATATTCGGTCCTGTCGGCTGTGATAATTGCAAAGGCGGTTACAAAGGCAGGGTCGG
TATTTATGAAGTGGTTAAAAACACGCCGTCCCTGCAGCGGATTATCATGGAGGAAGGCAACTCCATCGATATCGCCGCGC
AGATGCGTAAAGATGGCTTCAACGATCTGCGCAACTCGGGGCTACTGAAAGCCATGCAAGGCGTTACCAGCCTCGAGGAA
GTCAACCGCGTGACCAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

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

(43-148)


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

58.421

100

0.587
  pilB Acinetobacter baylyi ADP1

58.792

99.295

0.584
  pilB Legionella pneumophila strain ERS1305867

56.162

100

0.563
  pilB Vibrio parahaemolyticus RIMD 2210633

50.088

100

0.503
  pilB Vibrio cholerae strain A1552

50.446

98.942

0.499
  pilB Vibrio campbellii strain DS40M4

49.647

99.824

0.496
  pilF Neisseria gonorrhoeae MS11

48.845

99.295

0.485
  pilB/pilB1 Synechocystis sp. PCC 6803

35.703

100

0.39
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.925

93.651

0.374
  pilF Thermus thermophilus HB27

36.491

100

0.367

Multiple sequence alignment