Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACGHX3_RS15420 Genome accession   NZ_CP171632
Coordinates   3293573..3294436 (+) Length   287 a.a.
NCBI ID   WP_394695528.1    Uniprot ID   -
Organism   Pseudoxanthomonas japonensis strain LY0623     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3288573..3299436
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACGHX3_RS15400 (ACGHX3_15400) - 3288822..3289673 (-) 852 WP_394695524.1 glycosyltransferase family 2 protein -
  ACGHX3_RS15405 (ACGHX3_15405) - 3289886..3290215 (+) 330 WP_394695525.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  ACGHX3_RS15410 (ACGHX3_15410) pilB 3290306..3292039 (+) 1734 WP_394695526.1 type IV pilus assembly protein Machinery gene
  ACGHX3_RS15415 (ACGHX3_15415) pilC 3292307..3293569 (+) 1263 WP_394695527.1 type II secretion system F family protein Machinery gene
  ACGHX3_RS15420 (ACGHX3_15420) pilD 3293573..3294436 (+) 864 WP_394695528.1 A24 family peptidase Machinery gene
  ACGHX3_RS15425 (ACGHX3_15425) coaE 3294569..3295186 (+) 618 WP_394695529.1 dephospho-CoA kinase -
  ACGHX3_RS15430 (ACGHX3_15430) - 3295508..3296482 (-) 975 WP_394695530.1 bifunctional MutT family pyrophosphohydrolase/thiamine phosphate synthase -
  ACGHX3_RS15435 (ACGHX3_15435) secA 3296600..3299353 (-) 2754 WP_394695531.1 preprotein translocase subunit SecA -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31710.65 Da        Isoelectric Point: 8.0346

>NTDB_id=1062421 ACGHX3_RS15420 WP_394695528.1 3293573..3294436(+) (pilD) [Pseudoxanthomonas japonensis strain LY0623]
MAFLDQHPELGYPVVAGLGLLVGSFLNVVILRLPKRLEWEWKRDAREVLEEPELYDPPPPGIVVERSHCPHCKTPLSWYE
NIPLFSWLVLRGKCRHCKAPISPQYPIVELLTSLLAVAAVWRFGFGWQGFGAALLGCYLVALSGIDLRTRLLPDQLTLPL
MWLGLIGSLDNLYMPAKPALLGAIAGYVSLWLVWWLFKQVTGKEGMGRGDFKLLAALGAWVGLSGVLPIILISSVVGAVI
GSVWLGIKGRDHATPIPFGPYLAIAGWIVFFWGEQMIDAYLRFAGLA

Nucleotide


Download         Length: 864 bp        

>NTDB_id=1062421 ACGHX3_RS15420 WP_394695528.1 3293573..3294436(+) (pilD) [Pseudoxanthomonas japonensis strain LY0623]
GTGGCGTTCCTCGATCAACACCCCGAACTGGGATACCCGGTGGTCGCAGGCCTCGGCCTGCTGGTGGGCAGCTTCCTCAA
CGTGGTCATCCTGCGACTGCCCAAGCGGCTGGAATGGGAGTGGAAGCGCGACGCACGTGAAGTGCTGGAAGAGCCCGAGC
TCTACGACCCGCCGCCGCCCGGCATCGTGGTCGAACGCTCGCATTGCCCGCACTGCAAGACGCCGCTGTCCTGGTACGAG
AACATCCCGCTGTTCAGCTGGCTGGTGCTGCGTGGCAAGTGCCGGCACTGCAAGGCGCCGATCTCGCCGCAATATCCCAT
CGTCGAACTGCTGACCTCACTGCTGGCGGTTGCGGCCGTGTGGCGCTTCGGCTTCGGCTGGCAGGGTTTCGGGGCGGCGC
TGCTGGGCTGCTACCTGGTGGCGCTGAGCGGCATCGACCTGCGCACGCGCCTGTTGCCCGACCAGCTGACGTTGCCGCTG
ATGTGGCTGGGCCTGATTGGCAGCCTGGACAACCTCTACATGCCGGCCAAGCCCGCGCTGCTGGGTGCCATCGCCGGCTA
CGTGTCGCTGTGGCTGGTGTGGTGGCTGTTCAAGCAGGTCACCGGCAAGGAAGGCATGGGCCGCGGCGACTTCAAGCTGC
TGGCGGCGCTGGGCGCGTGGGTCGGCCTGAGCGGCGTGCTGCCCATCATCCTGATCTCCTCGGTGGTGGGCGCGGTGATC
GGCTCGGTCTGGCTGGGCATCAAAGGTCGTGATCATGCGACGCCCATTCCGTTCGGCCCCTATCTCGCCATCGCCGGCTG
GATCGTCTTCTTCTGGGGTGAGCAGATGATCGATGCCTATCTGCGCTTCGCCGGGCTGGCGTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)

Type IV leader peptidase family (Peptidase_A24)

(135-241)


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
  pilD Vibrio cholerae strain A1552

50.362

96.167

0.484
  pilD Acinetobacter baumannii D1279779

47.222

100

0.474
  pilD Vibrio campbellii strain DS40M4

46.831

98.955

0.463
  pilD Acinetobacter nosocomialis M2

47.163

98.258

0.463
  pilD Neisseria gonorrhoeae MS11

46.125

94.425

0.436

Multiple sequence alignment