Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   XFUD_RS11830 Genome accession   NZ_CP009790
Coordinates   2418009..2419742 (+) Length   577 a.a.
NCBI ID   WP_010894965.1    Uniprot ID   -
Organism   Xylella fastidiosa strain U24d     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2413009..2424742
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XFUD_RS11805 (XFUD_11075) pilC 2413356..2414558 (-) 1203 WP_010894959.1 type II secretion system F family protein Machinery gene
  XFUD_RS11810 (XFUD_11080) - 2415000..2415446 (+) 447 WP_010894960.1 pilin -
  XFUD_RS11820 (XFUD_11090) - 2416743..2417189 (+) 447 WP_010894963.1 pilin -
  XFUD_RS11825 (XFUD_11095) - 2417627..2417857 (-) 231 WP_010894964.1 hypothetical protein -
  XFUD_RS11830 (XFUD_11100) pilB 2418009..2419742 (+) 1734 WP_010894965.1 type IV-A pilus assembly ATPase PilB Machinery gene
  XFUD_RS11835 (XFUD_11105) pilR 2419836..2421248 (-) 1413 WP_031338065.1 sigma-54 dependent transcriptional regulator Regulator
  XFUD_RS11840 (XFUD_11110) - 2421434..2423044 (-) 1611 WP_010894967.1 ATP-binding protein -
  XFUD_RS11845 (XFUD_11115) sucC 2423299..2424462 (+) 1164 WP_010894968.1 ADP-forming succinate--CoA ligase subunit beta -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62964.01 Da        Isoelectric Point: 5.9154

>NTDB_id=132262 XFUD_RS11830 WP_010894965.1 2418009..2419742(+) (pilB) [Xylella fastidiosa strain U24d]
MNTPHSANLVGITGIARRLVQDGSIEEATARTAQNQAMAAKVPLPQWLIDKKLVSTAKLAAANALEFGMPLLDVSAFDHN
HNAMSLVDEELLQKHRVLPLFKRGNRLFVGISNPTQTQALDDIKFHTNLVVEPILVDEDQIRRTLEQWQSRSGALSSALE
EEDNGIEGLDIGGGDDDGASGDTGIDAKSDDTPVVKFVNKVLIDAIRRGASDIHFEPYEEDYRVRFRIDGLLKGVAKAPN
KLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNVSKTKQVDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEADQQTL
FMEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPD
VIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNKCKRPVQLPT
NALLAEGFTQEQIDAGLELYEPVGCDECTEGYKGRTGIYQVMPITEGISSIILAGGNALQIAEEAQRIGINDLRQSALLK
VAQGITGLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=132262 XFUD_RS11830 WP_010894965.1 2418009..2419742(+) (pilB) [Xylella fastidiosa strain U24d]
ATGAACACACCTCATTCAGCCAATCTTGTCGGCATCACCGGCATTGCCCGTCGCCTAGTCCAGGATGGCAGCATCGAGGA
AGCCACCGCACGCACTGCTCAAAATCAAGCAATGGCCGCAAAAGTGCCTTTACCACAGTGGTTGATCGATAAAAAACTAG
TAAGTACAGCAAAGTTGGCCGCCGCCAATGCACTTGAGTTCGGGATGCCGCTGCTGGATGTCTCCGCATTCGACCACAAT
CACAATGCAATGAGCTTGGTCGACGAAGAATTACTGCAAAAGCATCGGGTGTTGCCATTATTTAAACGCGGTAATCGACT
GTTCGTCGGGATCAGCAATCCAACCCAAACACAGGCCCTGGACGACATCAAATTCCACACCAATCTGGTCGTGGAACCGA
TTCTGGTCGACGAAGACCAGATACGGCGCACACTTGAGCAATGGCAATCTAGGAGCGGCGCGCTCAGCTCGGCATTGGAG
GAAGAGGATAACGGCATTGAAGGGCTGGATATCGGCGGCGGAGACGACGACGGGGCCAGTGGCGATACCGGGATTGATGC
CAAGAGCGATGACACACCTGTCGTCAAATTCGTCAACAAAGTGCTGATTGATGCCATCCGACGCGGCGCATCAGACATCC
ACTTTGAACCATACGAAGAAGATTACCGCGTCCGTTTCCGGATTGATGGTCTGCTGAAGGGTGTGGCAAAAGCACCGAAC
AAGTTGAATCAGCGTATCGCCGCACGCTTGAAAGTCATGTCGCAACTGGATATCGCGGAAAAACGCGTCCCTCAAGACGG
ACGTATCAAGCTTAATGTGTCGAAAACCAAGCAAGTCGATTTCCGCGTCAGCACCTTGCCAACGCTGTTCGGCGAGAAAG
TGGTGCTGCGTATCTTGGATGGCAGCGCGGCAAAGCTGGGTATCGACAAACTCGGTTACGAAGCTGACCAACAAACGCTT
TTTATGGAAGCAATCCACAAACCCTATGGAATGGTATTGGTCACTGGTCCGACCGGTTCGGGCAAGACAGTGTCACTGTA
CACTGCACTAGGCATCCTCAATGACGAAACACGCAATATCTCCACAGCCGAAGATCCTGTAGAAATCCGGCTGCCGGGCG
TCAATCAAGTACAACAAAACAACAAACGCGGTATGACGTTTGCCGCAGCATTGCGTTCGTTTCTGCGCCAAGACCCGGAT
GTCATCATGGTCGGCGAAATCCGAGACCTGGAAACCGCTGAAATCGCCATCAAAGCCGCACAGACCGGCCACATGGTGCT
CTCCACACTACATACCAACGATGCACCGCAAACCATCGCACGCCTCATGAACATGGGGATTGCACCATACAACATCACTT
CATCCGTGACCTTAGTGATTGCACAGCGATTGGCACGGAGATTGTGCAATAAGTGCAAGCGCCCGGTTCAATTGCCGACA
AACGCATTACTGGCCGAAGGATTCACTCAAGAACAAATTGATGCGGGGCTGGAATTATACGAGCCTGTCGGTTGCGACGA
ATGCACCGAAGGCTACAAAGGCCGCACAGGTATTTATCAAGTGATGCCAATTACCGAAGGGATTTCCTCGATCATTTTAG
CCGGCGGTAATGCCTTACAAATCGCCGAAGAGGCGCAGCGCATTGGCATCAACGACCTACGCCAATCGGCGCTACTCAAA
GTCGCTCAGGGCATCACCGGGCTGGCTGAAATTAATCGAGTCACCAAAGATTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(200-467)

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

(48-152)


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

57.143

98.267

0.562
  pilB Acinetobacter baumannii D1279779

56.261

98.267

0.553
  pilB Legionella pneumophila strain ERS1305867

51.761

98.44

0.51
  pilF Neisseria gonorrhoeae MS11

50.528

98.44

0.497
  pilB Vibrio cholerae strain A1552

49.54

94.107

0.466
  pilB Vibrio parahaemolyticus RIMD 2210633

47.5

97.054

0.461
  pilB Vibrio campbellii strain DS40M4

46.561

98.267

0.458
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.993

92.894

0.362
  pilF Thermus thermophilus HB27

40.077

89.948

0.36

Multiple sequence alignment