Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PSA3335_RS08080 Genome accession   NZ_CP008742
Coordinates   1637817..1638689 (-) Length   290 a.a.
NCBI ID   WP_002552022.1    Uniprot ID   -
Organism   Pseudomonas savastanoi pv. savastanoi NCPPB 3335     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1632817..1643689
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSA3335_RS08070 (PSA3335_07495) yacG 1636991..1637200 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  PSA3335_RS08075 (PSA3335_07500) coaE 1637197..1637820 (-) 624 WP_002552021.1 dephospho-CoA kinase -
  PSA3335_RS08080 (PSA3335_07505) pilD 1637817..1638689 (-) 873 WP_002552022.1 prepilin peptidase Machinery gene
  PSA3335_RS08085 (PSA3335_07510) pilC 1638691..1639908 (-) 1218 WP_002552023.1 type II secretion system F family protein Machinery gene
  PSA3335_RS08090 (PSA3335_07515) pilB 1639911..1641605 (-) 1695 WP_031597287.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSA3335_RS08095 - 1641831..1642226 (+) 396 WP_031597289.1 pilin -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32058.22 Da        Isoelectric Point: 8.3705

>NTDB_id=123982 PSA3335_RS08080 WP_002552022.1 1637817..1638689(-) (pilD) [Pseudomonas savastanoi pv. savastanoi NCPPB 3335]
MPLLDLLASSPLAFVTTCCLLGLIVGSFLNVVVYRLPKMMERDWKAQSREMLGLPAEPDQPAFNLNRPRSSCPHCAHKIR
PWENLPVISYLLLRGKCSQCKAPISMRYPMVELTCAVLSAYVAWHFGFGWQTAAMLVLSWGLLTMSLIDADNQLLPDSLV
LPLLWLGLIVNAFGLFTSLNDALWGAVAGYLALWSVFWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSLVG
AVLGVIMMRVRRVESGTPIPFGPYLAIAGWIALLWGGQITDSYMQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=123982 PSA3335_RS08080 WP_002552022.1 1637817..1638689(-) (pilD) [Pseudomonas savastanoi pv. savastanoi NCPPB 3335]
ATGCCCCTCCTCGACCTCCTGGCCAGCTCTCCCCTGGCCTTCGTCACCACCTGCTGCCTACTCGGCCTCATCGTCGGAAG
CTTCCTCAACGTAGTCGTCTACCGCCTCCCCAAAATGATGGAGCGCGACTGGAAAGCCCAATCCCGTGAAATGCTCGGCC
TGCCCGCCGAACCTGATCAGCCTGCCTTCAATCTGAACCGCCCCCGCTCCAGTTGCCCGCACTGCGCGCACAAGATCCGC
CCGTGGGAGAACCTGCCGGTCATCAGCTATCTGCTGCTGCGCGGTAAATGCTCGCAGTGCAAAGCCCCCATTAGCATGCG
CTACCCAATGGTCGAGCTGACCTGCGCAGTGTTATCGGCCTACGTCGCCTGGCATTTCGGTTTCGGCTGGCAAACGGCGG
CGATGCTGGTGTTGAGCTGGGGCCTGCTGACGATGAGTCTGATCGATGCCGATAATCAGCTGTTGCCTGACTCTCTGGTA
CTTCCACTGCTGTGGCTGGGCCTCATCGTCAACGCGTTCGGGCTGTTCACCTCGCTGAACGATGCGCTTTGGGGCGCAGT
GGCCGGTTATCTGGCGCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGGTGACAGGCAAGGAAGGCATGGGTTATGGCGACT
TCAAGTTGCTGGCCATGCTTGGCGCATGGGGCGGCTGGCAGATTCTGCCGTTGACCATCCTGCTGTCATCGCTGGTGGGC
GCGGTGCTTGGGGTGATCATGATGCGCGTGCGCAGGGTTGAAAGCGGTACGCCGATCCCCTTTGGTCCTTATCTGGCCAT
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

53.357

97.586

0.521
  pilD Vibrio campbellii strain DS40M4

52.297

97.586

0.51
  pilD Acinetobacter baumannii D1279779

52.92

94.483

0.5
  pilD Acinetobacter nosocomialis M2

51.825

94.483

0.49
  pilD Neisseria gonorrhoeae MS11

51.866

92.414

0.479

Multiple sequence alignment