Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   XF_RS11045 Genome accession   NC_002488
Coordinates   2410453..2411316 (-) Length   287 a.a.
NCBI ID   WP_010894958.1    Uniprot ID   Q9PAI1
Organism   Xylella fastidiosa 9a5c     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2405453..2416316
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XF_RS11025 (XF2532) rimK 2405994..2406858 (+) 865 Protein_2188 30S ribosomal protein S6--L-glutamate ligase -
  XF_RS11030 (XF2534) - 2407544..2408221 (+) 678 WP_010894955.1 response regulator transcription factor -
  XF_RS11035 (XF2535) - 2408214..2409551 (+) 1338 WP_023907057.1 sensor histidine kinase -
  XF_RS11040 (XF2536) coaE 2409818..2410441 (-) 624 WP_023907058.1 dephospho-CoA kinase -
  XF_RS11045 (XF2537) pilD 2410453..2411316 (-) 864 WP_010894958.1 prepilin peptidase Machinery gene
  XF_RS11050 (XF2538) pilC 2411323..2412525 (-) 1203 WP_010894959.1 type II secretion system F family protein Machinery gene
  XF_RS11055 (XF2539) pilA/pilAI 2412967..2413413 (+) 447 WP_010894960.1 pilin Machinery gene
  XF_RS11065 (XF2542) pilA/pilAI 2414710..2415156 (+) 447 WP_010894963.1 pilin Machinery gene
  XF_RS11070 (XF2543) - 2415594..2415944 (-) 351 WP_023907062.1 hypothetical protein -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31776.90 Da        Isoelectric Point: 8.6709

>NTDB_id=21141 XF_RS11045 WP_010894958.1 2410453..2411316(-) (pilD) [Xylella fastidiosa 9a5c]
MAFLDQHPGLGYPLASGLGLLLGSFLNVVILRLPRRLEWQWKRDAREILEMPDIYDPPPPGIVVEPSHDPVTGDRLKWWE
NIPVLSWLLLRGRSRYSGKSISLQYPLVELLTCLLVLASVWRFGFGWHGFGAIVFSCFLVALAGIDLRTRLLPDQLTLML
MWLGLIGSTDNLFMAAKPALLGAVVGYLSLWIVAALFKLIFNKEGMGHGDFKMLAALGAWCGLKGILPIILISSLAGVVL
GSVWLVVRGHNRTTMIPFGPYLAVGGWIVFFFGDQIIHAYLELLSIG

Nucleotide


Download         Length: 864 bp        

>NTDB_id=21141 XF_RS11045 WP_010894958.1 2410453..2411316(-) (pilD) [Xylella fastidiosa 9a5c]
ATGGCATTTCTTGACCAGCACCCCGGTCTCGGTTATCCCCTTGCGTCCGGTTTGGGGTTGTTGCTTGGTAGTTTTCTCAA
TGTGGTGATCCTGCGTTTGCCGCGCCGTTTGGAATGGCAATGGAAGCGCGATGCGCGCGAAATCCTGGAGATGCCGGACA
TTTATGATCCGCCACCACCGGGAATTGTGGTCGAGCCTTCCCACGATCCAGTGACTGGTGATCGGTTGAAGTGGTGGGAA
AACATTCCGGTGCTTAGCTGGTTGTTGCTACGTGGACGTTCGCGTTACAGCGGCAAGTCAATCTCGTTGCAGTATCCGTT
GGTCGAATTGCTGACTTGCCTGCTGGTGCTGGCCAGTGTTTGGCGTTTTGGATTCGGTTGGCATGGTTTTGGGGCAATTG
TGTTCAGTTGTTTCCTGGTTGCGTTGGCTGGGATTGATTTGCGTACTCGGCTCTTACCTGACCAGTTAACTTTAATGCTC
ATGTGGCTGGGTTTGATTGGATCGACGGATAACTTGTTTATGGCAGCCAAACCTGCGTTATTGGGGGCTGTAGTTGGTTA
TTTATCTCTGTGGATTGTGGCGGCGTTGTTCAAACTGATCTTTAACAAGGAAGGGATGGGCCATGGTGACTTCAAAATGC
TGGCCGCGCTTGGGGCATGGTGTGGGTTGAAGGGTATTCTCCCGATCATTTTGATTTCATCACTGGCTGGAGTGGTATTG
GGCTCCGTTTGGCTTGTTGTGCGTGGTCATAACCGTACAACGATGATTCCGTTTGGACCTTATCTGGCAGTTGGTGGATG
GATCGTGTTCTTTTTCGGCGATCAGATCATCCATGCTTATCTGGAGCTATTAAGTATCGGGTGA

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 Q9PAI1

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 cholerae strain A1552

42.403

98.606

0.418
  pilD Vibrio campbellii strain DS40M4

41.754

99.303

0.415
  pilD Acinetobacter nosocomialis M2

42.049

98.606

0.415
  pilD Acinetobacter baumannii D1279779

42.049

98.606

0.415
  pilD Neisseria gonorrhoeae MS11

44.03

93.38

0.411

Multiple sequence alignment