Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   XFASM12_RS09900 Genome accession   NC_010513
Coordinates   2208626..2209489 (-) Length   287 a.a.
NCBI ID   WP_004084594.1    Uniprot ID   B2I9Q6
Organism   Xylella fastidiosa M12     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2203626..2214489
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XFASM12_RS09880 (Xfasm12_2103) rimK 2204136..2205041 (+) 906 WP_004084588.1 30S ribosomal protein S6--L-glutamate ligase -
  XFASM12_RS09885 - 2205717..2206394 (+) 678 WP_010894955.1 response regulator transcription factor -
  XFASM12_RS09890 (Xfasm12_2105) - 2206387..2207724 (+) 1338 WP_012338100.1 HAMP domain-containing sensor histidine kinase -
  XFASM12_RS09895 (Xfasm12_2106) coaE 2207991..2208614 (-) 624 WP_004084593.1 dephospho-CoA kinase -
  XFASM12_RS09900 (Xfasm12_2107) pilD 2208626..2209489 (-) 864 WP_004084594.1 A24 family peptidase Machinery gene
  XFASM12_RS09905 (Xfasm12_2108) pilC 2209496..2210698 (-) 1203 WP_010894959.1 type II secretion system F family protein Machinery gene
  XFASM12_RS09910 (Xfasm12_2109) pilA 2211139..2211588 (+) 450 WP_012338101.1 pilin Machinery gene
  XFASM12_RS11970 (Xfasm12_2110) - 2211830..2212057 (-) 228 WP_012338102.1 hypothetical protein -
  XFASM12_RS09915 (Xfasm12_2112) pilA/pilAI 2212890..2213330 (+) 441 WP_012338104.1 pilin Machinery gene

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31704.79 Da        Isoelectric Point: 8.6709

>NTDB_id=28039 XFASM12_RS09900 WP_004084594.1 2208626..2209489(-) (pilD) [Xylella fastidiosa M12]
MAFLDQHPGLGYPLASGLGLLLGSFLNVVILRLPRRLEWQWKRDAREILEMPDIYDPPPPGIVVEPSHDPVTGDRLKWWE
NIPVLSWLLLRGRSRYSGKSISLQYPLVELLTCLLVLASVWRFGFGWHGFGAIVFSCFLVALAGIDLRTRLLPDQLTLML
MWLGLIGSADNLFMAAKPALLGAAVGYLSLWIVAALFKLIFNKEGMGHGDFKMLGALGAWCGLKGILPIILISSLAGVVL
GSVWLVVRGHNRTTMIPFGPYLAVGGWIVFFFGDQIIHAYLELLSIG

Nucleotide


Download         Length: 864 bp        

>NTDB_id=28039 XFASM12_RS09900 WP_004084594.1 2208626..2209489(-) (pilD) [Xylella fastidiosa M12]
ATGGCATTTCTTGATCAGCACCCCGGACTCGGCTATCCCCTTGCGTCCGGTTTGGGGTTGTTGCTTGGTAGTTTTCTCAA
TGTGGTGATCCTGCGTTTGCCGCGCCGTTTGGAATGGCAATGGAAGCGCGATGCGCGCGAAATCCTGGAGATGCCGGACA
TTTATGATCCGCCACCACCGGGAATTGTGGTCGAGCCTTCCCACGATCCAGTGACTGGTGATCGGTTGAAGTGGTGGGAA
AACATTCCGGTGCTTAGTTGGTTGTTGCTACGTGGACGCTCGCGTTACAGCGGCAAGTCAATCTCGTTGCAGTATCCGTT
GGTCGAATTGCTGACTTGCCTGCTGGTGCTGGCCAGTGTTTGGCGTTTTGGATTCGGTTGGCATGGCTTTGGGGCAATTG
TGTTCAGTTGTTTCCTGGTTGCGTTGGCTGGGATTGATTTGCGTACTCGGCTCTTACCTGACCAGTTAACTTTAATGCTT
ATGTGGCTGGGTTTGATTGGATCTGCGGATAACTTGTTTATGGCAGCCAAACCTGCGTTATTGGGGGCTGCAGTTGGTTA
TTTATCTCTGTGGATTGTGGCGGCGTTGTTCAAACTGATCTTTAACAAGGAAGGGATGGGCCATGGTGACTTCAAAATGC
TGGGCGCGCTTGGGGCATGGTGTGGGTTGAAGGGTATTCTCCCGATCATTTTGATTTCATCACTGGCTGGAGTGGTATTG
GGCTCCGTTTGGCTTGTTGTGCGTGGTCATAACCGTACGACGATGATTCCGTTTGGACCTTATCTGGCAGTTGGTGGATG
GATTGTGTTCTTTTTCGGCGATCAGATCATCCATGCTTATCTGGAGCTATTAAGTATCGGGTGA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(133-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB B2I9Q6

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
  pilD Vibrio campbellii strain DS40M4

41.754

99.303

0.415
  pilD Vibrio cholerae strain A1552

42.049

98.606

0.415
  pilD Acinetobacter nosocomialis M2

41.343

98.606

0.408
  pilD Acinetobacter baumannii D1279779

41.343

98.606

0.408
  pilD Neisseria gonorrhoeae MS11

43.284

93.38

0.404

Multiple sequence alignment