Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PMA4326_RS04105 Genome accession   NZ_CP047260
Coordinates   881782..882654 (-) Length   290 a.a.
NCBI ID   WP_007251658.1    Uniprot ID   A0A8T8BXS7
Organism   Pseudomonas syringae pv. maculicola str. ES4326     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 876782..887654
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PMA4326_RS04085 (PMA4326_004080) tnpB 878495..878854 (+) 360 WP_007247726.1 IS66 family insertion sequence element accessory protein TnpB -
  PMA4326_RS04090 (PMA4326_004085) - 878871..880403 (+) 1533 WP_159372363.1 IS66 family transposase -
  PMA4326_RS04095 (PMA4326_004090) yacG 880956..881165 (-) 210 WP_007251656.1 DNA gyrase inhibitor YacG -
  PMA4326_RS04100 (PMA4326_004095) coaE 881162..881785 (-) 624 WP_007251657.1 dephospho-CoA kinase -
  PMA4326_RS04105 (PMA4326_004100) pilD 881782..882654 (-) 873 WP_007251658.1 A24 family peptidase Machinery gene
  PMA4326_RS04110 (PMA4326_004105) pilC 882656..883873 (-) 1218 WP_007251659.1 type II secretion system F family protein Machinery gene
  PMA4326_RS04115 (PMA4326_004110) pilB 883876..885570 (-) 1695 WP_007251660.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PMA4326_RS04120 (PMA4326_004115) - 885796..886185 (+) 390 WP_007251661.1 pilin -

Sequence

Protein


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

>NTDB_id=411889 PMA4326_RS04105 WP_007251658.1 881782..882654(-) (pilD) [Pseudomonas syringae pv. maculicola str. ES4326]
MPLLDLLASSPLAFITICSLLGLIIGSFLNVVVYRLPIMMERDWKAQSREMLGLPAEPDQPVFNLTLPNSSCPHCAHKIR
PWENLPIISYLLLRGKCSQCNAPISKRYPLVELTCALLSAYIAWHFGFGWQAAAMLVLSWGLLAMSLIDTDHQLLPDSLV
LPLLWLGLIVNSFRLFTSLSDALWGAVAGYLTLWSVYWLFKLITGKEGMGHGDFKLLAMLGAWGGWQILPLTILLSSLVG
AVLGVIMMRIRRVESGTPIPFGPYLAIAGWIALLWGGQITDSYMQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=411889 PMA4326_RS04105 WP_007251658.1 881782..882654(-) (pilD) [Pseudomonas syringae pv. maculicola str. ES4326]
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

Multiple sequence alignment