Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   XFHB_RS12645 Genome accession   NZ_CP009885
Coordinates   2554103..2555836 (+) Length   577 a.a.
NCBI ID   WP_088578454.1    Uniprot ID   -
Organism   Xylella fastidiosa strain Hib4     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2549103..2560836
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XFHB_RS12620 (XFHB_11875) pilC 2549463..2550665 (-) 1203 WP_010894959.1 type II secretion system F family protein Machinery gene
  XFHB_RS12625 (XFHB_11880) - 2551107..2551553 (+) 447 WP_010894960.1 pilin -
  XFHB_RS12630 (XFHB_11885) - 2551814..2552017 (-) 204 WP_010894961.1 hypothetical protein -
  XFHB_RS12635 (XFHB_11890) - 2552850..2553284 (+) 435 WP_088578452.1 pilin -
  XFHB_RS12640 (XFHB_11895) - 2553721..2553951 (-) 231 WP_157293270.1 hypothetical protein -
  XFHB_RS12645 (XFHB_11900) pilB 2554103..2555836 (+) 1734 WP_088578454.1 type IV-A pilus assembly ATPase PilB Machinery gene
  XFHB_RS12650 (XFHB_11905) pilR 2555930..2557342 (-) 1413 WP_088578455.1 sigma-54 dependent transcriptional regulator Regulator
  XFHB_RS12655 (XFHB_11910) - 2557528..2559141 (-) 1614 WP_088578456.1 ATP-binding protein -
  XFHB_RS12660 (XFHB_11915) sucC 2559396..2560559 (+) 1164 WP_004090371.1 ADP-forming succinate--CoA ligase subunit beta -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62953.97 Da        Isoelectric Point: 5.9154

>NTDB_id=132692 XFHB_RS12645 WP_088578454.1 2554103..2555836(+) (pilB) [Xylella fastidiosa strain Hib4]
MNTSHSANLVGITGIARRLVQDGSIEEATARTAQNQAMAAKVPLPQWLIDKKLVSTAKLAAANALEFGMPLLDVSAFDHN
HNAMSLVDEELLQKHRVLPLFKRGNRLFVGISNPTQTQALDDIKFHTNLVVEPILVDEDQIRRTLEQWQSRSGALSSALE
EEDNGIEGLDIGGGDDDGASGDTGIDAKSDDTPVVKFVNKVLIDAIRRGASDIHFEPYEEDYRVRFRIDGLLKGVAKAPN
KLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNVSKTKQVDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEADQQTL
FMEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPD
VIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNKCKRPVQLPT
NALLAEGFTQEQIDAGLELYEPVGCDECTEGYKGRTGIYQVMPITEGISSIILAGGNALQIAEEAQRIGINDLRQSALLK
VAQGITGLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=132692 XFHB_RS12645 WP_088578454.1 2554103..2555836(+) (pilB) [Xylella fastidiosa strain Hib4]
ATGAACACATCTCATTCAGCCAATCTTGTCGGCATCACCGGTATTGCCCGTCGCCTGGTCCAGGATGGCAGCATCGAGGA
AGCCACCGCACGCACTGCTCAAAATCAAGCAATGGCCGCAAAAGTGCCTTTACCACAGTGGTTGATCGATAAAAAACTAG
TAAGTACAGCAAAGTTGGCCGCAGCCAATGCACTTGAGTTCGGGATGCCGCTGCTGGATGTCTCCGCATTCGACCACAAT
CACAATGCAATGAGCTTGGTCGACGAAGAATTACTGCAAAAGCATCGGGTGTTGCCATTATTTAAACGCGGTAATCGACT
GTTCGTCGGGATCAGCAATCCAACCCAAACACAGGCCCTGGACGACATCAAATTCCACACCAATCTGGTCGTGGAACCGA
TTCTGGTCGACGAAGACCAGATACGGCGCACACTTGAACAATGGCAATCTAGGAGCGGCGCGCTCAGCTCCGCATTGGAG
GAAGAGGATAACGGCATTGAAGGGCTGGATATCGGCGGCGGAGACGACGACGGGGCCAGTGGCGATACCGGGATTGATGC
CAAGAGCGATGACACACCTGTCGTCAAATTCGTCAACAAAGTGCTGATTGATGCCATCCGACGCGGCGCATCAGACATCC
ACTTTGAACCATACGAAGAAGATTACCGCGTCCGTTTCCGGATTGATGGTCTGCTGAAGGGTGTGGCAAAAGCACCGAAC
AAGTTGAATCAGCGTATCGCCGCACGCTTGAAAGTCATGTCGCAACTGGATATCGCGGAAAAACGCGTCCCTCAAGACGG
ACGTATCAAGCTTAATGTGTCGAAAACCAAGCAAGTCGATTTCCGCGTCAGCACCTTGCCAACGCTGTTCGGCGAGAAAG
TGGTGTTGCGTATCTTGGATGGCAGCGCGGCAAAGCTGGGTATCGACAAACTCGGTTACGAAGCTGACCAACAAACGCTT
TTTATGGAAGCAATCCACAAACCCTATGGAATGGTATTGGTCACTGGTCCGACCGGTTCGGGCAAGACAGTGTCACTGTA
CACTGCACTAGGCATCCTCAATGACGAAACACGCAATATCTCCACAGCCGAAGATCCTGTAGAAATCCGGCTGCCGGGCG
TCAATCAAGTACAACAAAACAACAAACGCGGTATGACGTTTGCCGCAGCATTGCGTTCGTTTCTGCGCCAAGACCCGGAT
GTCATCATGGTCGGCGAAATCCGAGACCTGGAAACCGCTGAAATCGCCATCAAAGCCGCACAGACCGGCCACATGGTGCT
CTCCACACTACATACCAACGATGCACCGCAAACCATCGCACGCCTCATGAACATGGGGATTGCACCATACAACATCACTT
CATCCGTGACCTTAGTGATTGCACAGCGATTGGCACGGAGATTGTGCAATAAGTGCAAGCGCCCGGTTCAATTGCCGACA
AACGCATTACTGGCCGAAGGATTCACTCAAGAACAAATTGATGCGGGGCTGGAATTGTACGAACCTGTCGGTTGCGACGA
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

46.903

97.92

0.459
  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