Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HW00_RS05960 Genome accession   NZ_CP008867
Coordinates   1282001..1282873 (+) Length   290 a.a.
NCBI ID   WP_059317084.1    Uniprot ID   -
Organism   Pseudomonas aeruginosa strain T52373     
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 1277509..1289480 1282001..1282873 within 0


Gene organization within MGE regions


Location: 1277509..1289480
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HW00_RS29855 tfpZ 1277509..1278246 (-) 738 WP_023110409.1 TfpX/TfpZ family type IV pilin accessory protein -
  HW00_RS28965 (HW00_05945) pilE 1278311..1278847 (-) 537 WP_025921208.1 pilin Machinery gene
  HW00_RS05950 (HW00_05950) pilB 1279074..1280777 (+) 1704 WP_023100230.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HW00_RS05955 (HW00_05955) pilC 1280781..1281998 (+) 1218 WP_023103506.1 type II secretion system F family protein Machinery gene
  HW00_RS05960 (HW00_05960) pilD 1282001..1282873 (+) 873 WP_059317084.1 type IV prepilin peptidase/methyltransferase PilD Machinery gene
  HW00_RS05965 (HW00_05965) coaE 1282870..1283481 (+) 612 WP_003094654.1 dephospho-CoA kinase -
  HW00_RS05970 (HW00_05970) yacG 1283478..1283678 (+) 201 WP_003094656.1 DNA gyrase inhibitor YacG -
  HW00_RS05975 (HW00_05975) - 1283715..1283924 (-) 210 WP_003094660.1 hypothetical protein -
  HW00_RS05980 (HW00_05980) - 1284030..1284719 (-) 690 WP_003103868.1 energy-coupling factor ABC transporter permease -
  HW00_RS05985 (HW00_05985) - 1284716..1285186 (-) 471 WP_003094664.1 hypothetical protein -
  HW00_RS05990 (HW00_05990) - 1285183..1285608 (-) 426 WP_033951923.1 GNAT family N-acetyltransferase -
  HW00_RS05995 (HW00_05995) - 1285741..1286370 (+) 630 WP_003094668.1 DUF1780 domain-containing protein -
  HW00_RS06000 (HW00_06000) - 1286367..1286816 (+) 450 WP_003094670.1 MOSC domain-containing protein -
  HW00_RS28970 - 1286842..1287011 (+) 170 Protein_1203 DUF3094 family protein -
  HW00_RS06010 (HW00_06010) - 1287075..1288382 (+) 1308 WP_003112837.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31906.91 Da        Isoelectric Point: 7.7068

>NTDB_id=125122 HW00_RS05960 WP_059317084.1 1282001..1282873(+) (pilD) [Pseudomonas aeruginosa strain T52373]
MQLTDYLASHPLAFVLCTILLGLLVGSFLNVVVHRLPKMMERNWKAEAREALGLEPEPKQATYNLVLPNSACPRCGHEIR
PWENIPLVSYLALGGKCSSCKAAIGKRYPLVELATALLSGYVAWHFGFTWQAGAMLLLTWGLLAMSLIDADHQLLPDVMV
LPLLWLGLIANHFGLFASLDDALFGAVFGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSLVG
AILGVIMLRLRNAESGTPIPFGPYLAIAGWIALLWGDQITRTYLQFAGFK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=125122 HW00_RS05960 WP_059317084.1 1282001..1282873(+) (pilD) [Pseudomonas aeruginosa strain T52373]
ATGCAACTCACAGACTACCTGGCCAGCCATCCGCTGGCCTTTGTCTTGTGCACCATCCTCCTCGGCCTGCTGGTCGGCAG
CTTCCTCAACGTCGTCGTGCATCGCCTGCCGAAGATGATGGAGCGCAACTGGAAGGCCGAGGCCCGCGAAGCGCTCGGGC
TGGAGCCGGAACCCAAGCAGGCGACCTACAACCTGGTGCTGCCGAATTCGGCGTGCCCGCGCTGCGGCCACGAGATCCGC
CCCTGGGAAAACATCCCGCTGGTCAGCTACCTGGCGCTGGGCGGCAAGTGCTCGTCCTGCAAGGCCGCCATCGGCAAACG
CTACCCCCTGGTGGAACTGGCCACCGCGCTGCTTTCCGGCTACGTCGCCTGGCATTTCGGCTTCACCTGGCAGGCGGGCG
CGATGCTCCTGCTGACCTGGGGCCTGCTGGCGATGAGCCTGATCGATGCCGATCACCAACTGCTGCCGGACGTGATGGTG
CTGCCGCTGCTCTGGCTGGGTCTGATCGCCAACCATTTCGGCCTCTTCGCCAGCCTCGACGATGCGCTGTTCGGCGCGGT
GTTCGGCTACCTGAGCCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGGTGACCGGCAAGGAGGGCATGGGCTACGGCGACT
TCAAGCTGCTGGCCATGCTCGGTGCCTGGGGCGGCTGGCAGATCCTGCCGCTGACCATCCTGCTGTCGTCGCTGGTCGGG
GCGATCCTCGGGGTGATCATGCTGCGCCTGCGCAACGCCGAAAGCGGCACGCCGATCCCCTTCGGTCCCTATCTGGCGAT
TGCCGGGTGGATTGCTTTGCTCTGGGGTGATCAAATAACCCGGACCTATCTGCAATTCGCCGGATTCAAATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(137-245)


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

55

96.552

0.531
  pilD Vibrio campbellii strain DS40M4

53.43

95.517

0.51
  pilD Acinetobacter nosocomialis M2

51.071

96.552

0.493
  pilD Acinetobacter baumannii D1279779

51.071

96.552

0.493
  pilD Neisseria gonorrhoeae MS11

48.929

96.552

0.472

Multiple sequence alignment