Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JGR68_RS11455 Genome accession   NZ_CP067113
Coordinates   2441821..2442681 (+) Length   286 a.a.
NCBI ID   WP_199362711.1    Uniprot ID   -
Organism   Luteimonas sp. MC1750     
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 2430584..2447423 2441821..2442681 within 0


Gene organization within MGE regions


Location: 2430584..2447423
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JGR68_RS11405 (JGR68_11405) - 2430584..2432356 (+) 1773 WP_199362721.1 tetratricopeptide repeat protein -
  JGR68_RS11410 (JGR68_11410) - 2432409..2433569 (+) 1161 WP_199362720.1 DegT/DnrJ/EryC1/StrS family aminotransferase -
  JGR68_RS11415 (JGR68_11415) - 2433649..2434161 (-) 513 WP_199362719.1 acyltransferase -
  JGR68_RS11420 (JGR68_11420) - 2434154..2435050 (-) 897 WP_199362718.1 hypothetical protein -
  JGR68_RS11425 (JGR68_11425) - 2435132..2435854 (-) 723 WP_199362717.1 class I SAM-dependent methyltransferase -
  JGR68_RS11430 (JGR68_11430) - 2435844..2437004 (-) 1161 WP_199362716.1 glycosyltransferase -
  JGR68_RS11435 (JGR68_11435) - 2437001..2437729 (-) 729 WP_199362715.1 methyltransferase domain-containing protein -
  JGR68_RS11440 (JGR68_11440) - 2437726..2438577 (-) 852 WP_199362714.1 glycosyltransferase family 2 protein -
  JGR68_RS11445 (JGR68_11445) pilB 2438710..2440434 (+) 1725 WP_199362713.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JGR68_RS11450 (JGR68_11450) pilC 2440618..2441817 (+) 1200 WP_199362712.1 type II secretion system F family protein Machinery gene
  JGR68_RS11455 (JGR68_11455) pilD 2441821..2442681 (+) 861 WP_199362711.1 A24 family peptidase Machinery gene
  JGR68_RS11460 (JGR68_11460) coaE 2442770..2443408 (+) 639 WP_199362710.1 dephospho-CoA kinase -
  JGR68_RS11465 (JGR68_11465) - 2443436..2443897 (-) 462 WP_199362709.1 hypothetical protein -
  JGR68_RS11470 (JGR68_11470) - 2443894..2444367 (-) 474 WP_199362708.1 hypothetical protein -
  JGR68_RS11475 (JGR68_11475) - 2444364..2445878 (-) 1515 WP_199362707.1 DUF2235 domain-containing protein -
  JGR68_RS11480 (JGR68_11480) - 2445906..2446535 (-) 630 WP_199362706.1 hypothetical protein -
  JGR68_RS11485 (JGR68_11485) - 2446567..2446803 (-) 237 WP_199362705.1 hypothetical protein -
  JGR68_RS11490 (JGR68_11490) - 2446809..2447423 (-) 615 WP_199362704.1 hypothetical protein -

Sequence

Protein


Download         Length: 286 a.a.        Molecular weight: 31355.19 Da        Isoelectric Point: 7.5458

>NTDB_id=525120 JGR68_RS11455 WP_199362711.1 2441821..2442681(+) (pilD) [Luteimonas sp. MC1750]
MAFLDQNPELGYPLVAGLGLLVGSFLNVVILRLPRRMEWQWKRDSREMLGEPELYDPPPPGIVVERSHCPSCGHQLSWYE
NIPVLSWLALGGKCRSCKAPISVQYPAVELLTMVLLVACVWRFGFGWQGFGAGLLTCFLIALSGIDLRTQLLPDSLTLPL
MWLGLIAAVENLYIEPKPALLGAIAGYVSLWSVWWVFKQLTGKEGMGHGDFKLLAALGAWCGLAGVLPIILISSLVGAVI
GSAWLFLKGRDRATPIPFGPYLAIAGWITFMWGGGLIDWYRGIAGF

Nucleotide


Download         Length: 861 bp        

>NTDB_id=525120 JGR68_RS11455 WP_199362711.1 2441821..2442681(+) (pilD) [Luteimonas sp. MC1750]
ATGGCCTTCCTCGACCAGAACCCCGAACTCGGCTATCCGCTGGTCGCAGGCCTCGGCCTGCTCGTCGGCAGCTTCCTCAA
CGTGGTCATCCTGCGCCTGCCCCGGCGCATGGAATGGCAGTGGAAGCGCGACAGCCGCGAGATGCTGGGTGAGCCGGAGC
TCTATGATCCGCCCCCGCCTGGCATCGTCGTCGAGCGCTCGCACTGCCCGAGTTGCGGCCACCAGCTGAGCTGGTACGAG
AACATTCCCGTGCTGAGCTGGCTGGCACTGGGCGGCAAGTGCCGCAGCTGCAAGGCGCCGATCTCGGTGCAGTACCCGGC
GGTCGAGCTGCTCACCATGGTGCTGCTGGTGGCCTGCGTCTGGCGCTTCGGCTTCGGCTGGCAGGGCTTCGGAGCCGGCT
TGCTGACCTGCTTCCTGATTGCCCTCTCGGGTATTGATCTACGCACCCAGCTGCTGCCCGACTCCCTCACCTTGCCGCTG
ATGTGGCTTGGCCTGATCGCGGCCGTCGAGAACCTCTACATCGAGCCCAAGCCGGCGCTGCTGGGCGCCATCGCGGGCTA
CGTCAGCCTGTGGAGCGTGTGGTGGGTGTTCAAGCAGCTCACCGGCAAGGAAGGCATGGGGCACGGCGACTTCAAGCTGC
TGGCCGCGCTGGGCGCCTGGTGTGGCTTGGCGGGCGTGCTGCCGATCATCCTGATCTCGTCGCTGGTGGGCGCGGTGATC
GGCAGCGCCTGGCTGTTCCTCAAGGGCCGCGACCGCGCCACGCCGATCCCGTTCGGCCCCTACCTGGCGATCGCGGGCTG
GATCACCTTCATGTGGGGCGGTGGCCTGATCGACTGGTATCGGGGCATCGCCGGGTTCTAG

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 Acinetobacter baumannii D1279779

47.751

100

0.483
  pilD Vibrio campbellii strain DS40M4

47.703

98.951

0.472
  pilD Acinetobacter nosocomialis M2

47.703

98.951

0.472
  pilD Vibrio cholerae strain A1552

48.54

95.804

0.465
  pilD Neisseria gonorrhoeae MS11

47.232

94.755

0.448