Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LPH63_RS00050 Genome accession   NZ_CP087695
Coordinates   12580..14313 (-) Length   577 a.a.
NCBI ID   WP_038269643.1    Uniprot ID   Z9JMR1
Organism   Xylella taiwanensis strain PLS434     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 7580..19313
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPH63_RS00035 (LPH63_00035) sucC 7878..9041 (-) 1164 WP_038269637.1 ADP-forming succinate--CoA ligase subunit beta -
  LPH63_RS00040 (LPH63_00040) - 9297..10907 (+) 1611 WP_038269639.1 ATP-binding protein -
  LPH63_RS00045 (LPH63_00045) pilR 11076..12488 (+) 1413 WP_038269641.1 sigma-54 dependent transcriptional regulator Regulator
  LPH63_RS00050 (LPH63_00050) pilB 12580..14313 (-) 1734 WP_038269643.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LPH63_RS00055 (LPH63_00055) - 14429..14794 (-) 366 WP_038269645.1 hypothetical protein -
  LPH63_RS00060 (LPH63_00060) - 15176..15652 (-) 477 WP_038269647.1 pilin -
  LPH63_RS00065 (LPH63_00065) - 15856..16398 (-) 543 WP_038269649.1 pilin -
  LPH63_RS00070 (LPH63_00070) - 16795..17001 (+) 207 WP_152536555.1 hypothetical protein -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62649.78 Da        Isoelectric Point: 6.0890

>NTDB_id=631003 LPH63_RS00050 WP_038269643.1 12580..14313(-) (pilB) [Xylella taiwanensis strain PLS434]
MNAAHSANLVGITGIARRLVQDGSIEEATARIAQDQATAAKVPLPQWLIDKKLVSAAKLAAANALEFGMPLLDVSAFDPN
HSAMSLINEDLLLKHQVLPLFKRGNRLFVGISNPTQTQALDDIKFHTNLVVEPILVDEDQIRRTLEQWQSRSGALSAGLA
EDDTGIEGLDIAGGDDDGMSGDAGVDAKSDDTPVVKFVNKVLIDAIRRGASDIHFEPYEEDYRVRFRIDGLLKSVAKAPN
KLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQVDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQAL
FLEAIHRPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPD
VIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNQCKRPVQLPA
NALLAEGFTQAQIDAGLELYEPVGCDECTEGYKGRTGIYQVMPITDGIASIVLTGGNALQIAEEARRIGIHDLRQSALLK
VAQGVTGLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=631003 LPH63_RS00050 WP_038269643.1 12580..14313(-) (pilB) [Xylella taiwanensis strain PLS434]
ATGAACGCAGCCCACTCCGCCAATCTTGTCGGCATTACCGGTATCGCCCGTCGCCTGGTCCAGGATGGCAGCATTGAAGA
AGCCACCGCACGCATCGCTCAAGATCAAGCAACGGCCGCCAAGGTACCTTTACCACAGTGGTTGATCGATAAAAAACTGG
TCAGTGCAGCAAAGTTGGCCGCCGCCAATGCACTTGAGTTCGGGATGCCGCTGCTGGATGTCTCTGCGTTCGACCCTAAT
CACAGTGCAATGAGTTTGATCAACGAAGATCTGCTGCTGAAGCATCAGGTGTTACCGTTATTTAAACGCGGCAATCGACT
GTTCGTCGGAATCAGCAACCCAACCCAGACCCAGGCTCTGGACGACATCAAGTTCCACACCAATTTGGTCGTAGAGCCGA
TTCTGGTTGACGAAGACCAGATACGGCGTACGCTCGAACAATGGCAGTCCAGGAGCGGTGCGCTCAGCGCTGGATTGGCG
GAGGATGACACCGGCATCGAAGGCTTGGACATCGCCGGCGGAGATGACGATGGGATGAGCGGCGATGCCGGCGTCGATGC
TAAGAGCGATGACACGCCGGTCGTCAAATTCGTCAACAAGGTGCTGATCGATGCCATCCGGCGCGGCGCATCGGACATCC
ATTTTGAACCATACGAAGAGGATTACCGGGTCCGATTCCGGATCGATGGTCTGCTGAAGAGTGTGGCAAAGGCACCAAAC
AAGTTGAACCAGCGTATCGCCGCACGTTTGAAAGTCATGTCGCAACTGGATATCGCGGAAAAGCGGGTCCCGCAAGACGG
GCGTATCAAGCTCAATCTATCGAAAACCAAGCAGGTCGATTTCCGCGTCAGTACACTGCCAACGCTGTTCGGCGAGAAAG
TCGTACTGCGTATCCTGGATGGCAGTGCGGCAAAGCTGGGTATCGACAAGCTCGGTTACGAGCCTGACCAACAGGCCCTC
TTTCTGGAAGCGATCCACAGACCCTACGGAATGGTCTTGGTCACTGGTCCGACCGGTTCGGGTAAGACGGTATCGCTTTA
CACCGCACTAGGCATCCTCAACGACGAAACACGCAATATCTCCACAGCCGAGGATCCTGTAGAAATCCGGCTGCCTGGGG
TCAATCAGGTACAACAAAACAACAAGCGCGGCATGACGTTCGCTGCAGCGTTACGTTCGTTTCTGCGTCAGGATCCAGAT
GTCATCATGGTCGGCGAAATCCGGGATCTTGAAACCGCTGAAATCGCCATCAAAGCCGCGCAAACCGGTCACATGGTGCT
CTCCACATTGCATACCAATGATGCGCCGCAAACCATCGCGCGTCTCATGAACATGGGGATTGCGCCGTACAACATCACCT
CGTCAGTGACATTGGTGATCGCACAGCGGTTGGCACGGCGGCTGTGCAATCAATGTAAGCGGCCGGTTCAATTGCCGGCG
AATGCATTGCTGGCCGAAGGGTTCACGCAGGCGCAGATCGATGCAGGGCTCGAACTGTACGAACCCGTCGGTTGCGACGA
ATGCACCGAAGGCTACAAAGGCCGCACAGGTATTTATCAAGTGATGCCAATTACGGACGGGATTGCTTCGATTGTTTTAA
CCGGCGGTAATGCGTTGCAAATCGCCGAGGAGGCGCGCCGCATCGGCATCCACGACCTGCGCCAGTCGGCACTGCTCAAA
GTCGCTCAGGGCGTGACGGGATTGGCCGAAATCAACCGGGTCACCAAAGATTAG

Domains

Predicted by InterproScan.

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

(48-152)

Type II/IV secretion system protein (T2SSE)

(200-467)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Z9JMR1

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

56.437

98.267

0.555
  pilB Acinetobacter baumannii D1279779

54.844

100

0.549
  pilB Legionella pneumophila strain ERS1305867

52.105

98.787

0.515
  pilF Neisseria gonorrhoeae MS11

49.735

98.267

0.489
  pilB Vibrio cholerae strain A1552

49.723

93.761

0.466
  pilB Vibrio campbellii strain DS40M4

46.208

98.267

0.454
  pilB Vibrio parahaemolyticus RIMD 2210633

47.445

94.974

0.451
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.925

92.894

0.371
  pilF Thermus thermophilus HB27

40.462

89.948

0.364