Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JGS08_RS04215 Genome accession   NZ_CP067022
Coordinates   938607..939479 (-) Length   290 a.a.
NCBI ID   WP_007251658.1    Uniprot ID   A0A8T8BXS7
Organism   Pseudomonas cannabina pv. alisalensis strain MAFF 301419     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 933607..944479
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JGS08_RS04195 (JGS08_04195) tnpB 935320..935679 (+) 360 WP_007247726.1 IS66 family insertion sequence element accessory protein TnpB -
  JGS08_RS04200 (JGS08_04200) tnpC 935696..937228 (+) 1533 WP_007247725.1 IS66 family transposase -
  JGS08_RS04205 (JGS08_04205) yacG 937781..937990 (-) 210 WP_007251656.1 DNA gyrase inhibitor YacG -
  JGS08_RS04210 (JGS08_04210) coaE 937987..938610 (-) 624 WP_007251657.1 dephospho-CoA kinase -
  JGS08_RS04215 (JGS08_04215) pilD 938607..939479 (-) 873 WP_007251658.1 A24 family peptidase Machinery gene
  JGS08_RS04220 (JGS08_04220) pilC 939481..940698 (-) 1218 WP_007251659.1 type II secretion system F family protein Machinery gene
  JGS08_RS04225 (JGS08_04225) pilB 940701..942395 (-) 1695 WP_007251660.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JGS08_RS04230 (JGS08_04230) - 942621..943010 (+) 390 WP_007251661.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32133.32 Da        Isoelectric Point: 7.9647

>NTDB_id=524501 JGS08_RS04215 WP_007251658.1 938607..939479(-) (pilD) [Pseudomonas cannabina pv. alisalensis strain MAFF 301419]
MPLLDLLASSPLAFITICSLLGLIIGSFLNVVVYRLPIMMERDWKAQSREMLGLPAEPDQPVFNLTLPNSSCPHCAHKIR
PWENLPIISYLLLRGKCSQCNAPISKRYPLVELTCALLSAYIAWHFGFGWQAAAMLVLSWGLLAMSLIDTDHQLLPDSLV
LPLLWLGLIVNSFRLFTSLSDALWGAVAGYLTLWSVYWLFKLITGKEGMGHGDFKLLAMLGAWGGWQILPLTILLSSLVG
AVLGVIMMRIRRVESGTPIPFGPYLAIAGWIALLWGGQITDSYMQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=524501 JGS08_RS04215 WP_007251658.1 938607..939479(-) (pilD) [Pseudomonas cannabina pv. alisalensis strain MAFF 301419]
ATGCCCCTCCTCGACCTCTTGGCCAGCTCACCCCTGGCCTTCATCACTATCTGCTCTCTACTCGGCCTGATAATCGGAAG
CTTCCTCAACGTAGTCGTCTACCGACTCCCAATCATGATGGAGCGCGACTGGAAAGCCCAATCCCGAGAAATGCTCGGCC
TCCCCGCCGAGCCGGACCAACCCGTCTTCAACCTGACTCTCCCCAACTCCAGTTGCCCACACTGCGCGCACAAGATCCGT
CCATGGGAAAACCTGCCGATCATCAGTTACCTGCTGCTGCGCGGCAAATGCTCACAATGCAACGCCCCGATCAGCAAACG
CTACCCGCTGGTCGAGCTGACCTGTGCACTGCTGTCAGCCTATATCGCCTGGCATTTCGGCTTTGGCTGGCAAGCGGCTG
CGATGCTGGTGTTGAGCTGGGGCCTGTTGGCGATGAGTCTGATCGATACCGATCATCAGCTGTTGCCTGACTCGCTCGTG
CTGCCGCTGCTGTGGCTGGGCCTGATCGTCAACTCGTTCAGGCTGTTCACCTCGCTGAGTGATGCGCTGTGGGGCGCGGT
GGCCGGATACCTGACGCTGTGGTCGGTGTACTGGCTGTTTAAACTGATCACAGGCAAGGAAGGCATGGGCCATGGCGATT
TCAAGTTGCTGGCGATGCTTGGTGCCTGGGGAGGCTGGCAGATTTTGCCGCTGACCATTCTGTTGTCGTCGCTGGTGGGC
GCGGTGTTGGGCGTGATCATGATGCGTATTCGCCGGGTTGAAAGCGGCACGCCGATTCCCTTTGGTCCCTATCTGGCGAT
TGCGGGGTGGATCGCTTTGCTCTGGGGTGGTCAAATAACCGACTCTTACATGCAGTTTGCCGGTTTCAGATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(136-245)


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

54.064

97.586

0.528
  pilD Vibrio campbellii strain DS40M4

50.883

97.586

0.497
  pilD Acinetobacter baumannii D1279779

53.358

92.414

0.493
  pilD Acinetobacter nosocomialis M2

53.358

92.414

0.493
  pilD Neisseria gonorrhoeae MS11

50

92.414

0.462