Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NW905_RS21720 Genome accession   NZ_CP103054
Coordinates   4809096..4809962 (+) Length   288 a.a.
NCBI ID   WP_258800499.1    Uniprot ID   -
Organism   Pseudomonas mosselii strain P33     
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 4784342..4811241 4809096..4809962 within 0


Gene organization within MGE regions


Location: 4784342..4811241
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NW905_RS21610 (NW905_21610) - 4784342..4785382 (+) 1041 WP_258800486.1 DMT family transporter -
  NW905_RS21615 (NW905_21615) - 4785543..4786562 (+) 1020 WP_258800487.1 hypothetical protein -
  NW905_RS21620 (NW905_21620) - 4786562..4787320 (+) 759 WP_258800488.1 hypothetical protein -
  NW905_RS21625 (NW905_21625) - 4787439..4788221 (+) 783 WP_258800489.1 hypothetical protein -
  NW905_RS21630 (NW905_21630) - 4788344..4788829 (-) 486 WP_028689872.1 PIN domain-containing protein -
  NW905_RS21635 (NW905_21635) - 4788810..4789877 (-) 1068 WP_062575161.1 ImmA/IrrE family metallo-endopeptidase -
  NW905_RS21640 (NW905_21640) - 4790081..4790677 (+) 597 WP_277461250.1 hypothetical protein -
  NW905_RS21645 (NW905_21645) - 4791109..4792122 (-) 1014 WP_258800490.1 alpha/beta hydrolase -
  NW905_RS21650 (NW905_21650) - 4792162..4792548 (-) 387 WP_258800491.1 helix-turn-helix domain-containing protein -
  NW905_RS21655 (NW905_21655) - 4792712..4793395 (-) 684 WP_028689876.1 hydrolase -
  NW905_RS21660 (NW905_21660) - 4793655..4794116 (+) 462 WP_241410926.1 RidA family protein -
  NW905_RS21665 (NW905_21665) - 4794136..4795104 (-) 969 WP_258800492.1 LysR family transcriptional regulator -
  NW905_RS21670 (NW905_21670) - 4795268..4795498 (-) 231 WP_028689879.1 hypothetical protein -
  NW905_RS21675 (NW905_21675) - 4797786..4798079 (+) 294 Protein_4285 integrase core domain-containing protein -
  NW905_RS21680 (NW905_21680) - 4798477..4799163 (-) 687 WP_258800493.1 hypothetical protein -
  NW905_RS21685 (NW905_21685) - 4799168..4799596 (-) 429 WP_258800494.1 hypothetical protein -
  NW905_RS21690 (NW905_21690) - 4799813..4800271 (-) 459 WP_258800495.1 hypothetical protein -
  NW905_RS21695 (NW905_21695) - 4800268..4801254 (-) 987 WP_258800496.1 hypothetical protein -
  NW905_RS21700 (NW905_21700) - 4801536..4806314 (-) 4779 WP_258800497.1 DUF3320 domain-containing protein -
  NW905_RS21710 (NW905_21710) - 4807247..4807657 (-) 411 WP_050703679.1 pilin -
  NW905_RS21715 (NW905_21715) - 4807885..4809093 (+) 1209 WP_258800498.1 type II secretion system F family protein -
  NW905_RS21720 (NW905_21720) pilD 4809096..4809962 (+) 867 WP_258800499.1 A24 family peptidase Machinery gene
  NW905_RS21725 (NW905_21725) coaE 4809962..4810585 (+) 624 WP_028689885.1 dephospho-CoA kinase -
  NW905_RS21730 (NW905_21730) yacG 4810582..4810782 (+) 201 WP_217852761.1 DNA gyrase inhibitor YacG -
  NW905_RS21735 (NW905_21735) - 4810993..4811241 (+) 249 WP_096049333.1 hypothetical protein -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31559.73 Da        Isoelectric Point: 7.2985

>NTDB_id=721199 NW905_RS21720 WP_258800499.1 4809096..4809962(+) (pilD) [Pseudomonas mosselii strain P33]
MNAWAVIVDHPPFFYALAAVLGLLVGSFLNVLVYRLPLMLERQWQREAQEVLGLPQAEHERFDLCLPASRCPHCQRPIRA
WENIPVLSYLALRGRCSGCKARISARYPLVELASALLSLLVAWHFGPGVEALAVMLLTWGLIGLSLIDAEHQLLPDVLVL
PLLWLGLVVNAFGLLVPLADAVWGAVAGYLSLWTVYWVFKLVTGKEGMGFGDFKLLAMLGAWGGWQILPLTLMLASLVGA
LIGLTLVRLKRTQMGAALPFGPYLAIAGWIAVLWGDEIVASYLQLLGT

Nucleotide


Download         Length: 867 bp        

>NTDB_id=721199 NW905_RS21720 WP_258800499.1 4809096..4809962(+) (pilD) [Pseudomonas mosselii strain P33]
ATGAATGCCTGGGCCGTAATCGTCGATCATCCGCCGTTCTTTTATGCCCTGGCCGCGGTGCTGGGGTTGCTGGTGGGCAG
TTTTCTCAATGTGCTGGTGTACCGGCTGCCGCTGATGCTCGAGCGCCAGTGGCAGCGGGAGGCGCAAGAGGTGCTGGGGC
TGCCGCAGGCCGAGCACGAGCGTTTCGACCTGTGCCTGCCGGCTTCGCGTTGCCCGCATTGCCAGCGCCCGATCCGGGCG
TGGGAAAACATTCCGGTGTTGAGTTACCTGGCCTTGCGCGGGCGTTGCTCGGGGTGCAAGGCGCGGATCAGTGCGCGTTA
TCCACTGGTGGAGCTGGCCAGCGCCCTGCTGTCGCTGCTGGTGGCCTGGCATTTCGGGCCGGGCGTGGAAGCACTGGCGG
TGATGCTGCTGACCTGGGGCCTGATCGGCTTGAGCCTGATCGATGCCGAGCACCAGTTGCTGCCGGATGTGCTGGTACTG
CCGCTGCTGTGGCTGGGGTTGGTGGTCAACGCCTTCGGGCTGCTGGTGCCGCTGGCCGATGCAGTGTGGGGCGCGGTGGC
GGGTTACCTGAGCCTGTGGACGGTGTACTGGGTGTTCAAGCTGGTGACCGGCAAGGAGGGCATGGGCTTTGGCGACTTCA
AGCTGCTGGCCATGCTTGGGGCCTGGGGCGGTTGGCAGATTTTGCCGCTGACCTTGATGCTGGCCTCGCTGGTGGGGGCG
CTGATCGGGCTGACGCTGGTGCGTTTGAAGCGCACGCAAATGGGCGCTGCGCTGCCTTTCGGGCCTTATCTGGCCATTGC
GGGGTGGATCGCCGTGCTCTGGGGTGATGAAATAGTCGCTTCTTACCTGCAACTGCTTGGAACCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


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

54.839

96.875

0.531
  pilD Acinetobacter baumannii D1279779

52.03

94.097

0.49
  pilD Acinetobacter nosocomialis M2

50.923

94.097

0.479
  pilD Neisseria gonorrhoeae MS11

51.301

93.403

0.479
  pilD Vibrio campbellii strain DS40M4

49.458

96.181

0.476