Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   OY559_RS15780 Genome accession   NZ_CP113783
Coordinates   3338642..3339505 (+) Length   287 a.a.
NCBI ID   WP_277727182.1    Uniprot ID   -
Organism   Pseudoxanthomonas sp. SE1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3333642..3344505
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OY559_RS15760 (OY559_15770) - 3334150..3334242 (+) 93 Protein_3096 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OY559_RS15765 - 3334783..3335112 (+) 330 WP_277727177.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OY559_RS15770 (OY559_15780) pilB 3335273..3337006 (+) 1734 WP_277727179.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OY559_RS15775 (OY559_15785) pilC 3337373..3338638 (+) 1266 WP_277727181.1 type II secretion system F family protein Machinery gene
  OY559_RS15780 (OY559_15790) pilD 3338642..3339505 (+) 864 WP_277727182.1 A24 family peptidase Machinery gene
  OY559_RS15785 (OY559_15795) coaE 3339590..3340237 (+) 648 WP_277727185.1 dephospho-CoA kinase -
  OY559_RS15790 (OY559_15800) - 3340395..3340688 (-) 294 WP_277727187.1 transposase -
  OY559_RS15795 (OY559_15805) - 3341168..3342121 (-) 954 WP_277727189.1 Nudix family hydrolase -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31814.66 Da        Isoelectric Point: 8.5975

>NTDB_id=763046 OY559_RS15780 WP_277727182.1 3338642..3339505(+) (pilD) [Pseudoxanthomonas sp. SE1]
MAFLDQHPELGYPVVAGLGLLVGSFLNVVILRLPRRLEWEWKRDAREVLEEPEIYDPPPPGIVVERSHCPHCKTALSWYE
NIPLFSWLALRGNCRHCKAPISPQYPLVELLTALLAVASVWRFGFGWQGFGAALLSCYLVALSGIDLRTRLLPDQLTLPL
MWLGLIGSLDNLYMPAKPALLGAIAGYVSLWLVWWLFKQITGKEGMGRGDFKLLAALGAWVGLNGVLPIILISSLVGAVV
GSAWLAVRGRDRATPIPFGPYLAIAGWIVFFWGQQIVDTYLRFAGLK

Nucleotide


Download         Length: 864 bp        

>NTDB_id=763046 OY559_RS15780 WP_277727182.1 3338642..3339505(+) (pilD) [Pseudoxanthomonas sp. SE1]
ATGGCGTTTCTGGATCAACACCCCGAACTGGGGTACCCGGTGGTGGCAGGCCTGGGCCTGCTGGTGGGCAGCTTTCTCAA
TGTGGTCATCCTGCGACTGCCGCGGCGGCTGGAGTGGGAGTGGAAGCGTGACGCCCGCGAGGTGCTGGAAGAGCCGGAGA
TCTACGATCCGCCGCCTCCCGGCATCGTGGTGGAACGCTCGCACTGCCCGCACTGCAAAACGGCGCTGTCCTGGTACGAG
AACATCCCGCTGTTCAGCTGGCTGGCCCTGCGCGGCAATTGCCGCCACTGCAAGGCCCCGATCTCGCCGCAGTACCCGCT
CGTCGAGCTGCTGACCGCGTTGCTGGCGGTCGCCTCGGTATGGCGGTTCGGCTTTGGCTGGCAGGGCTTTGGCGCGGCGC
TGCTGAGCTGCTACCTGGTGGCGCTGAGCGGCATCGACCTGCGCACGCGGTTGCTGCCCGACCAGCTGACGCTGCCGTTG
ATGTGGCTGGGCCTGATCGGCAGCCTCGACAACCTCTACATGCCCGCCAAGCCGGCACTGCTGGGCGCCATCGCCGGCTA
TGTGTCGCTGTGGCTGGTGTGGTGGCTGTTCAAACAGATCACCGGCAAGGAAGGCATGGGCCGGGGCGACTTCAAGCTCC
TTGCGGCCCTCGGCGCCTGGGTGGGATTGAATGGCGTGCTGCCCATCATTCTGATCTCCTCGCTCGTGGGTGCCGTGGTC
GGTTCGGCCTGGCTGGCGGTGCGGGGCCGCGACCGCGCCACGCCGATCCCGTTCGGCCCCTATCTGGCCATCGCGGGCTG
GATCGTGTTCTTCTGGGGCCAGCAGATCGTGGACACCTACCTGCGTTTCGCCGGCCTGAAGTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)

Type IV leader peptidase family (Peptidase_A24)

(134-241)


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 Vibrio campbellii strain DS40M4

47.183

98.955

0.467
  pilD Acinetobacter nosocomialis M2

47.163

98.258

0.463
  pilD Acinetobacter baumannii D1279779

46.454

98.258

0.456
  pilD Neisseria gonorrhoeae MS11

45.018

94.425

0.425