Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   D934_RS12515 Genome accession   NZ_CP006696
Coordinates   2700919..2702652 (+) Length   577 a.a.
NCBI ID   WP_020851241.1    Uniprot ID   -
Organism   Xylella fastidiosa subsp. sandyi Ann-1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2695919..2707652
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D934_RS12490 (D934_13465) pilC 2696225..2697427 (-) 1203 WP_010894959.1 type II secretion system F family protein Machinery gene
  D934_RS12495 (D934_13470) - 2697869..2698315 (+) 447 WP_020851238.1 pilin -
  D934_RS12500 (D934_13475) - 2698554..2698781 (-) 228 WP_020851239.1 hypothetical protein -
  D934_RS12510 (D934_13485) - 2699620..2700072 (+) 453 WP_020851240.1 pilin -
  D934_RS12515 (D934_13490) pilB 2700919..2702652 (+) 1734 WP_020851241.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D934_RS12520 (D934_13495) pilR 2702746..2704158 (-) 1413 WP_020851242.1 sigma-54 dependent transcriptional regulator Regulator
  D934_RS12525 (D934_13500) - 2704344..2705954 (-) 1611 WP_020851243.1 ATP-binding protein -
  D934_RS12530 (D934_13505) sucC 2706209..2707372 (+) 1164 WP_004090371.1 ADP-forming succinate--CoA ligase subunit beta -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62933.98 Da        Isoelectric Point: 5.9144

>NTDB_id=113589 D934_RS12515 WP_020851241.1 2700919..2702652(+) (pilB) [Xylella fastidiosa subsp. sandyi Ann-1]
MNTPHSANLVGITGIARRLVQDGSIEEATARTAQNQAMAAKVPLPQWLIDKKLVSAAKLAAANALEFGMPLLDVSAFDHN
HNAMSLVDEELLQKHRVLPLFKRGNRLFVGISNPTQTQALDDIKFHTNLVVEPILVDEDQIRRTLEQWQSRSGALSSALD
EEDNGIEGLDIGGGDDDGASGDTGIDAKSDDTPVVKFVNKVLIDAIRRGASDIHFEPYEEDYRVRFRIDGLLKGVAKAPN
KLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQVDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEADQQTL
FMEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPD
VIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNKCKRPVQLPT
NALLAEGFTQEQIDAGLELYEPVGCDECTEGYKGRTGIYQVMPITEGISSIILAGGNALQIAEEAQRIGINDLRQSALLK
VAQGITGLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=113589 D934_RS12515 WP_020851241.1 2700919..2702652(+) (pilB) [Xylella fastidiosa subsp. sandyi Ann-1]
ATGAACACACCTCATTCAGCCAATCTTGTCGGCATCACCGGTATTGCCCGTCGCCTGGTCCAGGATGGCAGCATTGAGGA
AGCCACTGCACGCACTGCTCAAAATCAGGCAATGGCCGCAAAAGTGCCTTTACCACAGTGGTTGATCGATAAAAAACTAG
TGAGTGCAGCAAAATTGGCCGCGGCCAATGCACTTGAGTTCGGGATGCCGCTACTGGATGTGTCCGCATTCGACCACAAT
CACAATGCAATGAGCTTGGTCGACGAAGAATTACTGCAAAAGCATCGGGTGTTGCCATTATTTAAACGCGGTAATCGACT
GTTCGTCGGGATCAGCAATCCAACCCAAACACAGGCCCTGGACGACATCAAATTCCACACCAACCTGGTCGTAGAACCGA
TTCTGGTCGACGAAGACCAGATACGGCGCACACTTGAACAATGGCAATCTAGGAGCGGCGCGCTCAGCTCCGCATTGGAT
GAAGAGGATAACGGCATTGAAGGGCTGGATATCGGCGGCGGAGACGACGACGGGGCCAGTGGCGATACCGGGATTGATGC
CAAGAGCGATGACACACCTGTCGTCAAATTCGTCAACAAAGTGCTGATTGATGCCATCCGACGCGGCGCATCAGACATCC
ACTTTGAACCATACGAAGAAGATTACCGCGTCCGTTTCCGGATTGATGGTCTGCTGAAGGGTGTGGCAAAAGCACCGAAC
AAGTTGAATCAGCGTATCGCCGCACGCTTGAAAGTCATGTCGCAACTGGATATCGCGGAAAAACGCGTCCCTCAAGACGG
ACGTATCAAGCTTAATCTGTCGAAAACCAAGCAAGTCGATTTCCGCGTCAGCACCTTGCCAACGCTGTTCGGCGAGAAAG
TGGTACTGCGTATCTTGGATGGCAGCGCGGCAAAGCTGGGTATCGACAAACTCGGTTACGAAGCTGACCAACAAACGCTT
TTTATGGAAGCAATCCACAAACCCTATGGAATGGTACTGGTCACTGGTCCGACCGGTTCGGGCAAGACAGTGTCACTTTA
CACTGCACTAGGCATCCTCAATGACGAAACACGCAATATCTCCACAGCCGAAGATCCTGTAGAAATCCGGCTGCCGGGTG
TCAATCAGGTACAACAAAACAACAAGCGCGGTATGACGTTTGCCGCAGCATTACGTTCGTTCCTGCGCCAAGATCCGGAT
GTCATTATGGTCGGCGAAATCCGTGATCTGGAAACCGCTGAAATCGCCATCAAAGCCGCACAGACCGGCCACATGGTGCT
CTCCACACTACATACCAACGATGCACCGCAAACCATCGCACGCCTCATGAACATGGGGATTGCACCATACAACATCACTT
CATCCGTGACCTTAGTGATTGCACAGCGATTGGCACGGAGATTGTGCAACAAGTGCAAGCGCCCGGTTCAATTGCCGACA
AACGCATTACTGGCCGAAGGATTCACTCAAGAACAAATTGATGCGGGGCTGGAATTATACGAGCCTGTCGGTTGCGACGA
ATGCACCGAAGGCTACAAAGGCCGCACAGGTATTTATCAAGTGATGCCAATTACCGAAGGGATTTCCTCGATCATTTTAG
CCGGCGGTAATGCCTTACAAATCGCCGAAGAGGCACAGCGCATCGGCATCAACGACCTACGCCAATCGGCGCTACTCAAA
GTTGCTCAGGGTATCACCGGGCTGGCTGAAATTAATCGAGTCACCAAAGATTAG

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

56.966

98.267

0.56
  pilB Acinetobacter baumannii D1279779

56.614

98.267

0.556
  pilB Legionella pneumophila strain ERS1305867

52.281

98.787

0.516
  pilF Neisseria gonorrhoeae MS11

50.439

98.614

0.497
  pilB Vibrio cholerae strain A1552

49.724

94.107

0.468
  pilB Vibrio parahaemolyticus RIMD 2210633

47.08

97.92

0.461
  pilB Vibrio campbellii strain DS40M4

46.303

98.44

0.456
  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