Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   G4Y78_RS08435 Genome accession   NZ_CP048878
Coordinates   1770812..1771693 (-) Length   293 a.a.
NCBI ID   WP_163832603.1    Uniprot ID   -
Organism   Spartinivicinus ruber strain S2-4-1H     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1765812..1776693
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  G4Y78_RS08415 argJ 1767791..1769005 (+) 1215 WP_163832600.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  G4Y78_RS08420 - 1769023..1769988 (+) 966 WP_163832601.1 Nudix family hydrolase -
  G4Y78_RS08425 yacG 1770018..1770224 (-) 207 WP_222937666.1 DNA gyrase inhibitor YacG -
  G4Y78_RS08430 coaE 1770217..1770822 (-) 606 WP_163832602.1 dephospho-CoA kinase -
  G4Y78_RS08435 pilD 1770812..1771693 (-) 882 WP_163832603.1 A24 family peptidase Machinery gene
  G4Y78_RS08440 pilC 1771779..1772996 (-) 1218 WP_163832604.1 type II secretion system F family protein Machinery gene
  G4Y78_RS08445 pilB 1773242..1774936 (-) 1695 WP_163832605.1 type IV-A pilus assembly ATPase PilB Machinery gene
  G4Y78_RS31520 pilA2 1775206..1775709 (+) 504 WP_329604954.1 pilin Machinery gene

Sequence

Protein


Download         Length: 293 a.a.        Molecular weight: 32512.76 Da        Isoelectric Point: 7.5624

>NTDB_id=423706 G4Y78_RS08435 WP_163832603.1 1770812..1771693(-) (pilD) [Spartinivicinus ruber strain S2-4-1H]
MNIIDYLASSPAAFIIVSLVFGLIVGSFLNVVILRLPTMMKRDWQTQCCELLEQTPPTFEPTKFNLIFPHSHCPKCQTPV
KAWHNIPILSYILLKGKCANCQASISIRYPIIEFVTGLLAVAAAYYYGFSWQMIAVSSLFFAMVVLTMIDLDEQLLPDSI
TLPFLWLGLALNYFSFFTDLGSALWGAIAGYLSLWSVYWAFKLLTGKEGMGHGDFKLLACFGAWFGWQMLPVIILLSSLV
GAVVGIIMIGLGLKDRSSKIPFGPYLAIAGIIACLWGETLINNYLQIAKFHGV

Nucleotide


Download         Length: 882 bp        

>NTDB_id=423706 G4Y78_RS08435 WP_163832603.1 1770812..1771693(-) (pilD) [Spartinivicinus ruber strain S2-4-1H]
ATGAATATAATTGATTACTTAGCCAGTAGTCCTGCTGCTTTTATTATAGTCTCACTTGTTTTTGGTCTGATTGTTGGCAG
CTTTTTAAATGTCGTTATTTTACGACTCCCCACCATGATGAAACGGGACTGGCAAACGCAGTGTTGTGAGTTGCTTGAAC
AAACACCACCTACCTTTGAGCCTACTAAATTTAATTTAATTTTCCCTCACTCCCATTGCCCTAAGTGTCAAACCCCCGTG
AAAGCCTGGCATAATATACCCATTTTGAGCTATATCCTGTTAAAGGGAAAATGCGCTAACTGCCAAGCCTCCATATCTAT
TCGCTACCCCATTATAGAGTTCGTCACTGGTTTGCTAGCTGTGGCTGCTGCTTATTACTATGGCTTTAGCTGGCAAATGA
TAGCAGTTAGCAGCTTATTTTTTGCCATGGTAGTACTCACCATGATTGACCTGGATGAGCAGTTACTACCTGATAGTATT
ACCTTACCTTTTTTATGGCTTGGTCTTGCCCTAAATTATTTCAGCTTCTTCACTGATCTTGGTAGCGCACTCTGGGGAGC
AATTGCCGGATATTTATCATTATGGAGTGTGTATTGGGCTTTTAAATTACTCACAGGCAAAGAAGGTATGGGGCATGGTG
ACTTTAAGTTGCTAGCCTGCTTTGGTGCCTGGTTTGGCTGGCAAATGCTACCTGTTATTATCCTCCTTTCTTCTCTTGTG
GGGGCTGTTGTAGGTATCATTATGATTGGGCTTGGGTTAAAAGACAGAAGTAGTAAAATCCCTTTTGGTCCTTATTTGGC
AATTGCCGGTATCATTGCTTGCTTATGGGGTGAAACCTTGATTAATAATTATCTACAAATAGCAAAGTTTCATGGTGTAT
AA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(139-246)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)


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

51.986

94.539

0.491
  pilD Vibrio campbellii strain DS40M4

49.458

94.539

0.468
  pilD Acinetobacter baumannii D1279779

47.887

96.928

0.464
  pilD Acinetobacter nosocomialis M2

47.887

96.928

0.464
  pilD Neisseria gonorrhoeae MS11

51.383

86.348

0.444