Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   IUD23_RS05895 Genome accession   NZ_CP090316
Coordinates   1315555..1316418 (+) Length   287 a.a.
NCBI ID   WP_004084594.1    Uniprot ID   B2I9Q6
Organism   Xylella fastidiosa subsp. morus strain Riv16     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1310555..1321418
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IUD23_RS05875 (IUD23_05875) pilA 1311720..1312154 (-) 435 WP_038228615.1 pilin Machinery gene
  IUD23_RS05880 (IUD23_05880) - 1312987..1313214 (+) 228 WP_012338102.1 hypothetical protein -
  IUD23_RS05885 (IUD23_05885) pilA 1313459..1313905 (-) 447 WP_040123054.1 pilin Machinery gene
  IUD23_RS05890 (IUD23_05890) pilC 1314346..1315548 (+) 1203 WP_010894959.1 type II secretion system F family protein Machinery gene
  IUD23_RS05895 (IUD23_05895) pilD 1315555..1316418 (+) 864 WP_004084594.1 A24 family peptidase Machinery gene
  IUD23_RS05900 (IUD23_05900) coaE 1316430..1317053 (+) 624 WP_020851236.1 dephospho-CoA kinase -
  IUD23_RS05905 (IUD23_05905) - 1317320..1318657 (-) 1338 WP_004090387.1 HAMP domain-containing sensor histidine kinase -
  IUD23_RS05910 (IUD23_05910) - 1318650..1319327 (-) 678 WP_010894955.1 response regulator transcription factor -
  IUD23_RS05915 (IUD23_05915) rimK 1320020..1320925 (-) 906 WP_038228620.1 30S ribosomal protein S6--L-glutamate ligase -

Sequence

Protein


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

>NTDB_id=553578 IUD23_RS05895 WP_004084594.1 1315555..1316418(+) (pilD) [Xylella fastidiosa subsp. morus strain Riv16]
MAFLDQHPGLGYPLASGLGLLLGSFLNVVILRLPRRLEWQWKRDAREILEMPDIYDPPPPGIVVEPSHDPVTGDRLKWWE
NIPVLSWLLLRGRSRYSGKSISLQYPLVELLTCLLVLASVWRFGFGWHGFGAIVFSCFLVALAGIDLRTRLLPDQLTLML
MWLGLIGSADNLFMAAKPALLGAAVGYLSLWIVAALFKLIFNKEGMGHGDFKMLGALGAWCGLKGILPIILISSLAGVVL
GSVWLVVRGHNRTTMIPFGPYLAVGGWIVFFFGDQIIHAYLELLSIG

Nucleotide


Download         Length: 864 bp        

>NTDB_id=553578 IUD23_RS05895 WP_004084594.1 1315555..1316418(+) (pilD) [Xylella fastidiosa subsp. morus strain Riv16]
ATGGCATTTCTTGATCAGCACCCCGGACTCGGCTATCCCCTTGCGTCCGGTTTGGGGTTGTTGCTTGGTAGTTTTCTCAA
TGTGGTGATCCTGCGTTTGCCGCGCCGTTTGGAATGGCAATGGAAGCGCGATGCGCGCGAAATCCTGGAGATGCCGGACA
TTTATGATCCGCCACCACCGGGAATTGTGGTCGAGCCTTCCCACGATCCAGTGACTGGTGATCGGTTGAAGTGGTGGGAA
AACATTCCGGTGCTTAGTTGGTTGTTGCTACGTGGACGCTCGCGTTACAGCGGCAAGTCAATCTCGTTGCAGTATCCGTT
GGTCGAATTGCTGACTTGCCTGCTGGTGCTGGCCAGTGTTTGGCGTTTTGGATTCGGTTGGCATGGCTTTGGGGCAATTG
TGTTCAGTTGTTTCCTGGTTGCGTTGGCTGGGATTGATTTGCGTACTCGGCTCTTACCTGACCAGTTAACTTTAATGCTT
ATGTGGCTGGGTTTGATTGGATCTGCGGATAACTTGTTTATGGCAGCCAAACCTGCGTTATTGGGGGCTGCAGTTGGTTA
TTTATCTCTGTGGATTGTGGCGGCGTTGTTCAAACTGATCTTTAACAAGGAAGGGATGGGCCATGGTGACTTCAAAATGT
TGGGCGCGCTTGGGGCATGGTGTGGGTTGAAGGGTATTCTCCCGATCATTTTGATTTCATCACTGGCTGGAGTGGTATTG
GGCTCCGTTTGGCTTGTTGTGCGTGGTCATAACCGTACGACGATGATTCCGTTTGGACCTTATCTGGCAGTTGGTGGATG
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 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