Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LG309_RS15825 Genome accession   NZ_CP085231
Coordinates   3395213..3396082 (-) Length   289 a.a.
NCBI ID   WP_404395062.1    Uniprot ID   -
Organism   Stutzerimonas chloritidismutans strain ADH2-893     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 3382794..3397302 3395213..3396082 within 0


Gene organization within MGE regions


Location: 3382794..3397302
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LG309_RS15745 (LG309_15720) rsmI 3382794..3383657 (-) 864 WP_041014820.1 16S rRNA (cytidine(1402)-2'-O)-methyltransferase -
  LG309_RS15750 (LG309_15725) - 3383782..3385584 (+) 1803 WP_404395050.1 penicillin-binding protein activator -
  LG309_RS15755 (LG309_15730) - 3385584..3385946 (+) 363 WP_014821349.1 YraN family protein -
  LG309_RS15760 (LG309_15735) - 3386056..3386649 (+) 594 WP_013981954.1 phosphoheptose isomerase -
  LG309_RS15765 (LG309_15740) - 3386646..3387224 (+) 579 WP_404395053.1 BON domain-containing protein -
  LG309_RS15770 (LG309_15745) - 3387264..3387662 (-) 399 WP_404395055.1 ClpXP protease specificity-enhancing factor -
  LG309_RS15775 (LG309_15750) - 3387675..3388292 (-) 618 WP_090519234.1 glutathione S-transferase N-terminal domain-containing protein -
  LG309_RS15780 (LG309_15755) - 3388381..3389160 (-) 780 WP_278379752.1 cytochrome c1 -
  LG309_RS15785 (LG309_15760) - 3389160..3390371 (-) 1212 WP_041014823.1 cytochrome bc complex cytochrome b subunit -
  LG309_RS15790 (LG309_15765) petA 3390371..3390964 (-) 594 WP_014821354.1 ubiquinol-cytochrome c reductase iron-sulfur subunit -
  LG309_RS15795 (LG309_15770) rpsI 3391221..3391613 (-) 393 WP_003302797.1 30S ribosomal protein S9 -
  LG309_RS15800 (LG309_15775) rplM 3391628..3392056 (-) 429 WP_014821355.1 50S ribosomal protein L13 -
  LG309_RS15805 (LG309_15780) - 3392488..3393525 (+) 1038 WP_404395059.1 NADP(H)-dependent aldo-keto reductase -
  LG309_RS15810 (LG309_15785) - 3393588..3394268 (+) 681 WP_045666681.1 energy-coupling factor ABC transporter permease -
  LG309_RS15815 (LG309_15790) yacG 3394279..3394476 (-) 198 WP_003302802.1 DNA gyrase inhibitor YacG -
  LG309_RS15820 (LG309_15795) coaE 3394473..3395081 (-) 609 WP_003302803.1 dephospho-CoA kinase -
  LG309_RS15825 (LG309_15800) pilD 3395213..3396082 (-) 870 WP_404395062.1 prepilin peptidase Machinery gene
  LG309_RS15830 (LG309_15805) pilC 3396085..3397302 (-) 1218 WP_404395064.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32249.25 Da        Isoelectric Point: 6.6226

>NTDB_id=616130 LG309_RS15825 WP_404395062.1 3395213..3396082(-) (pilD) [Stutzerimonas chloritidismutans strain ADH2-893]
MMLMDYLASHVLAVVLSAALLGLLVGSFLNVLIYRLPIMMQREWRAQALEYLECPPEQISERFNLLLPSSRCPHCDHQIR
SWENIPLVSWLALRGKCSSCRAPISSRYPLVELACGLLSGYVAWHFGFTWEAGAMLLLTWGLVAMSMIDIDHQLLPDSLV
LPLLWLGLILNNFGLFVSLESALWGAVAGYLSLWSVYWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQVLPLTILLSSVVG
AVLGTILLRVQRAESSTPIPFGPYLAIAGWIALLWGDRITESYLQFARF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=616130 LG309_RS15825 WP_404395062.1 3395213..3396082(-) (pilD) [Stutzerimonas chloritidismutans strain ADH2-893]
ATGATGTTGATGGATTATCTGGCCAGCCACGTGCTGGCCGTTGTTTTGTCCGCTGCTTTGCTAGGTTTGTTGGTCGGCAG
CTTTCTCAATGTCTTGATTTATCGCTTGCCGATCATGATGCAGCGTGAGTGGCGTGCGCAGGCGCTTGAGTATCTCGAGT
GCCCGCCGGAGCAGATCAGTGAGCGCTTCAATCTGCTGCTGCCAAGTTCGCGGTGCCCGCACTGTGATCATCAGATTCGC
TCTTGGGAGAATATCCCCTTGGTCAGCTGGCTGGCCTTGCGTGGCAAGTGTTCGTCATGCCGGGCGCCGATCAGCAGTCG
CTATCCCCTTGTGGAGTTGGCGTGCGGCCTGCTTTCTGGCTATGTCGCTTGGCATTTCGGTTTCACCTGGGAGGCAGGAG
CAATGCTGTTGCTGACCTGGGGATTGGTGGCGATGAGCATGATCGATATCGATCATCAGTTGCTGCCCGATTCGCTGGTT
CTGCCGCTGTTGTGGCTTGGCCTCATCCTGAACAACTTCGGGTTGTTCGTATCGCTTGAAAGTGCACTGTGGGGAGCGGT
AGCGGGATATCTGAGCCTGTGGTCGGTTTATTGGCTGTTCAAGCTGGTCACCGGCAAAGAAGGTATGGGTTACGGCGATT
TCAAACTGCTTGCGATGTTAGGCGCTTGGGGTGGCTGGCAGGTGTTACCACTTACAATCCTATTGTCGTCGGTGGTTGGG
GCTGTTCTTGGCACAATCCTGTTGCGGGTGCAGCGCGCCGAGAGCAGCACGCCCATCCCTTTCGGTCCCTACTTGGCGAT
CGCCGGCTGGATCGCGTTGCTTTGGGGTGACCGGATTACCGAGAGCTATCTCCAGTTCGCGCGCTTCTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(137-244)


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

59.559

94.118

0.561
  pilD Vibrio campbellii strain DS40M4

55.515

94.118

0.522
  pilD Acinetobacter baumannii D1279779

51.056

98.27

0.502
  pilD Acinetobacter nosocomialis M2

51.056

98.27

0.502
  pilD Neisseria gonorrhoeae MS11

52.852

91.003

0.481