Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   E5843_RS11920 Genome accession   NZ_CP039383
Coordinates   2570590..2571456 (+) Length   288 a.a.
NCBI ID   WP_136412749.1    Uniprot ID   -
Organism   Luteimonas yindakuii strain S-1072     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2565590..2576456
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E5843_RS11905 (E5843_12445) - 2565805..2566923 (+) 1119 WP_141066025.1 hypothetical protein -
  E5843_RS11910 (E5843_12450) pilB 2567290..2569010 (+) 1721 Protein_2315 type IV-A pilus assembly ATPase PilB -
  E5843_RS11915 (E5843_12455) pilC 2569281..2570552 (+) 1272 WP_136412748.1 type II secretion system F family protein Machinery gene
  E5843_RS11920 (E5843_12460) pilD 2570590..2571456 (+) 867 WP_136412749.1 A24 family peptidase Machinery gene
  E5843_RS11925 (E5843_12465) - 2571631..2571930 (-) 300 WP_136412750.1 hypothetical protein -
  E5843_RS11930 (E5843_12470) xth 2572086..2572910 (+) 825 WP_134674144.1 exodeoxyribonuclease III -
  E5843_RS11935 (E5843_12475) - 2572984..2573160 (+) 177 WP_136412752.1 DUF3606 domain-containing protein -
  E5843_RS11940 (E5843_12480) ligD 2573176..2575813 (+) 2638 Protein_2321 DNA ligase D -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31643.57 Da        Isoelectric Point: 7.2565

>NTDB_id=358412 E5843_RS11920 WP_136412749.1 2570590..2571456(+) (pilD) [Luteimonas yindakuii strain S-1072]
MAFLDQHPELGYPAAAALGLMLGSFLNVVILRLPRRLEWEWKRDAREVLEAPEIYDPPPPGIVVERSHCPHCGHQLSWYE
NIPVFSWLALRGKCRSCKAPISIQYPLVELLTMLLVLACVWNFGFGWQGFGAIVLTCFLVALSGIDLRTQLLPDQLTLPL
MWLGLIAAADNLYMPAKPALLGAIAGYVSLWSVWWVFKQLTGKEGMGHGDFKLLAALGAWCGLMGILPIILLSAVAGAII
GSIWLASQGRDRATPIPFGPYLAIAGWIVFMWGDQLIGAYMRYAGLGA

Nucleotide


Download         Length: 867 bp        

>NTDB_id=358412 E5843_RS11920 WP_136412749.1 2570590..2571456(+) (pilD) [Luteimonas yindakuii strain S-1072]
ATGGCATTTCTCGATCAGCACCCCGAACTGGGGTATCCGGCTGCGGCTGCGCTCGGGCTCATGCTCGGCAGCTTCCTGAA
TGTGGTGATCCTGCGGCTTCCGCGGCGGCTGGAATGGGAGTGGAAGCGCGACGCGCGCGAGGTGCTGGAGGCGCCGGAAA
TCTACGATCCGCCGCCGCCCGGCATCGTGGTGGAGCGTTCGCACTGCCCGCACTGCGGCCACCAGCTGAGCTGGTACGAG
AACATCCCGGTCTTCAGCTGGCTGGCGCTGCGCGGCAAGTGCCGCTCGTGCAAGGCGCCGATCTCGATCCAGTACCCGCT
GGTCGAGCTGCTGACGATGCTGCTGGTGCTGGCCTGCGTGTGGAACTTCGGCTTCGGCTGGCAGGGCTTCGGCGCGATCG
TGCTGACCTGTTTCCTCGTCGCGCTGTCGGGCATCGACCTGCGCACGCAATTGCTGCCGGACCAGTTGACGCTGCCATTG
ATGTGGCTGGGGTTGATTGCCGCTGCCGACAACCTCTACATGCCGGCGAAGCCCGCGCTGCTGGGCGCGATCGCGGGATA
TGTGAGCCTGTGGTCGGTGTGGTGGGTGTTCAAGCAGCTCACCGGCAAGGAAGGCATGGGCCACGGCGACTTCAAGCTGC
TGGCGGCGCTGGGCGCGTGGTGTGGATTGATGGGCATCCTGCCGATCATCCTGCTGTCGGCGGTGGCCGGTGCGATCATC
GGCTCGATCTGGCTGGCGTCGCAGGGTCGCGACCGCGCGACGCCGATTCCGTTCGGGCCCTATCTGGCAATTGCCGGCTG
GATCGTCTTCATGTGGGGCGACCAGTTGATAGGCGCATATATGCGCTACGCGGGGCTGGGGGCCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(133-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)


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

51.087

95.833

0.49
  pilD Vibrio campbellii strain DS40M4

49.296

98.611

0.486
  pilD Acinetobacter baumannii D1279779

48.264

100

0.483
  pilD Acinetobacter nosocomialis M2

48.227

97.917

0.472
  pilD Neisseria gonorrhoeae MS11

45.126

96.181

0.434

Multiple sequence alignment