Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HNE05_RS04355 Genome accession   NZ_CP053697
Coordinates   956748..957614 (-) Length   288 a.a.
NCBI ID   WP_173203707.1    Uniprot ID   A0A6M8FQ11
Organism   Aquipseudomonas campi strain S1-A32-2     
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 953016..964141 956748..957614 within 0


Gene organization within MGE regions


Location: 953016..964141
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HNE05_RS04325 (HNE05_01935) - 953016..953483 (+) 468 WP_173203699.1 FAD/FMN-containing dehydrogenase -
  HNE05_RS04330 (HNE05_01940) - 953480..954169 (+) 690 WP_173203701.1 energy-coupling factor ABC transporter permease -
  HNE05_RS04335 (HNE05_01945) - 954273..954488 (+) 216 WP_173211596.1 hypothetical protein -
  HNE05_RS04340 (HNE05_01950) - 954631..955771 (+) 1141 Protein_853 IS481 family transposase -
  HNE05_RS04345 (HNE05_01955) yacG 955945..956139 (-) 195 WP_173203703.1 DNA gyrase inhibitor YacG -
  HNE05_RS04350 (HNE05_01960) coaE 956136..956747 (-) 612 WP_173203705.1 dephospho-CoA kinase -
  HNE05_RS04355 (HNE05_01965) pilD 956748..957614 (-) 867 WP_173203707.1 prepilin peptidase Machinery gene
  HNE05_RS04360 (HNE05_01970) pilC 957618..958838 (-) 1221 WP_173203709.1 type II secretion system F family protein Machinery gene
  HNE05_RS04365 (HNE05_01975) pilB 958842..960551 (-) 1710 WP_173203711.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HNE05_RS20545 (HNE05_01980) pilV 960788..960973 (+) 186 WP_173203713.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  HNE05_RS04375 (HNE05_01985) - 960990..961445 (+) 456 WP_173203716.1 hypothetical protein -
  HNE05_RS04380 (HNE05_01990) - 961591..962379 (+) 789 WP_240008815.1 hypothetical protein -
  HNE05_RS04385 (HNE05_01995) - 962382..963221 (+) 840 WP_173203718.1 hypothetical protein -
  HNE05_RS04390 (HNE05_02000) - 963221..964141 (+) 921 WP_173203720.1 ABC transporter ATP-binding protein -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31887.95 Da        Isoelectric Point: 7.2966

>NTDB_id=446379 HNE05_RS04355 WP_173203707.1 956748..957614(-) (pilD) [Aquipseudomonas campi strain S1-A32-2]
MALDLLAGNLPAFVLSALLLGLLIGSFLNVVVYRLPKMMQREWRIQAREILELPEEPADETFNLVLPHSSCPHCGHQIKP
WENIPVLSWLALRGKCSSCKAPISKRYPLVELACGLLSAYVAWHFGFGWQAGAMLVLSWGLLAMSLIDTDHQLLPDTLVL
PLLWLGLLLNYYGLFTSLGDALWGAIAGYLSLWSVYWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQIMPLTILLSSLVGA
VLGVIMLRLRNQVTSTPIPFGPYLAIAGWIALLWGDQITGAYLQFARF

Nucleotide


Download         Length: 867 bp        

>NTDB_id=446379 HNE05_RS04355 WP_173203707.1 956748..957614(-) (pilD) [Aquipseudomonas campi strain S1-A32-2]
ATGGCTTTAGACCTTCTGGCCGGCAATTTGCCGGCCTTTGTTTTATCCGCCCTGCTGCTCGGCCTGTTGATCGGCAGCTT
CCTCAATGTAGTGGTCTATCGCCTGCCAAAAATGATGCAGCGCGAATGGCGCATCCAGGCCCGGGAAATTCTCGAGTTAC
CTGAAGAGCCGGCCGACGAGACCTTCAATCTGGTTCTCCCCCACTCCAGCTGCCCGCACTGCGGACACCAAATCAAGCCC
TGGGAGAACATCCCGGTGCTGAGTTGGCTGGCGCTCCGCGGCAAGTGCTCCAGCTGCAAAGCGCCGATCAGCAAGCGCTA
CCCGCTGGTAGAGCTCGCCTGCGGACTGCTCTCTGCCTATGTGGCCTGGCACTTCGGTTTTGGCTGGCAGGCCGGCGCCA
TGCTGGTATTGAGCTGGGGCCTGCTGGCCATGAGCCTGATCGATACCGACCACCAACTGCTGCCCGATACGCTGGTGCTG
CCGCTGCTCTGGCTGGGGCTGCTCCTCAACTATTACGGCCTCTTCACCAGCCTGGGTGATGCCCTGTGGGGCGCTATCGC
CGGCTATCTGAGCCTGTGGTCGGTGTACTGGCTGTTCAAGCTGGTGACGGGCAAGGAAGGCATGGGTTACGGCGACTTCA
AGCTGCTGGCCATGCTCGGCGCCTGGGGTGGCTGGCAAATTATGCCGCTGACCATTCTGCTGTCATCGCTGGTCGGCGCC
GTACTCGGCGTGATCATGCTGCGCCTGCGCAATCAGGTAACCAGTACACCCATCCCCTTTGGCCCCTATCTGGCAATTGC
CGGCTGGATTGCGCTGCTCTGGGGTGATCAAATAACCGGAGCCTATTTGCAATTCGCCCGGTTTTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(19-125)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A6M8FQ11

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

58.242

94.792

0.552
  pilD Vibrio campbellii strain DS40M4

56.41

94.792

0.535
  pilD Acinetobacter baumannii D1279779

53.791

96.181

0.517
  pilD Acinetobacter nosocomialis M2

53.069

96.181

0.51
  pilD Neisseria gonorrhoeae MS11

48.289

91.319

0.441