Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ERL55_RS12470 Genome accession   NZ_CP035376
Coordinates   2704545..2705411 (+) Length   288 a.a.
NCBI ID   WP_129136700.1    Uniprot ID   -
Organism   Luteimonas sp. YGD11-2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2699545..2710411
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ERL55_RS12450 - 2700032..2700304 (+) 273 WP_129136696.1 hypothetical protein -
  ERL55_RS12455 pilA/pilA1 2700575..2701006 (+) 432 WP_129136697.1 pilin Machinery gene
  ERL55_RS12460 pilB 2701323..2703044 (+) 1722 WP_129136698.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ERL55_RS12465 pilC 2703236..2704507 (+) 1272 WP_129136699.1 type II secretion system F family protein Machinery gene
  ERL55_RS12470 pilD 2704545..2705411 (+) 867 WP_129136700.1 A24 family peptidase Machinery gene
  ERL55_RS12475 - 2705465..2705809 (-) 345 WP_129136701.1 hypothetical protein -
  ERL55_RS12480 xth 2706232..2707098 (+) 867 WP_129136702.1 exodeoxyribonuclease III -
  ERL55_RS12485 - 2707215..2707391 (+) 177 WP_129136703.1 DUF3606 domain-containing protein -
  ERL55_RS12490 ligD 2707407..2710085 (+) 2679 WP_129136704.1 DNA ligase D -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31521.43 Da        Isoelectric Point: 7.2568

>NTDB_id=339428 ERL55_RS12470 WP_129136700.1 2704545..2705411(+) (pilD) [Luteimonas sp. YGD11-2]
MAFLDQHPELGYPAAAALGLMLGSFLNVVILRLPKRLEWEWKRDAREVLEAPEIYDPPPPGIVVERSHCPHCGHQLSWYE
NIPVFSWLALRGKCRSCKAPISIQYPLVELLTMLLVLACVWNFGFGWQGFGAIVLTCFLVALSGIDLRTQLLPDQLTLPL
MWLGLIAAADNLYMPAKPALLGAIAGYVSLWSVWWVFKQLTGKDGMGHGDFKLLAALGAWCGLVGILPIILVSAVAGAII
GSIWLATQGRDRASPIPFGPYLAIAGWIVFMWGDRLIGWYMGVAGLGG

Nucleotide


Download         Length: 867 bp        

>NTDB_id=339428 ERL55_RS12470 WP_129136700.1 2704545..2705411(+) (pilD) [Luteimonas sp. YGD11-2]
ATGGCATTTCTCGATCAGCACCCCGAACTGGGGTATCCGGCTGCGGCTGCGCTCGGGCTCATGCTCGGCAGCTTCCTCAA
TGTGGTGATCCTGCGGCTGCCGAAACGGCTGGAGTGGGAATGGAAGCGCGACGCGCGCGAGGTGCTGGAAGCGCCGGAGA
TCTACGATCCACCGCCACCCGGCATCGTGGTGGAACGCTCGCACTGCCCGCACTGCGGCCACCAGCTGAGCTGGTACGAG
AACATCCCGGTCTTCAGCTGGCTGGCGCTGCGCGGCAAGTGCCGCTCGTGCAAGGCGCCGATCTCGATCCAGTACCCGCT
GGTCGAGCTGCTGACGATGCTGCTGGTACTGGCCTGCGTGTGGAACTTCGGCTTCGGCTGGCAGGGCTTCGGCGCGATCG
TGCTGACCTGCTTCCTCGTCGCGCTATCGGGCATCGACCTGCGCACGCAGCTGCTACCGGACCAGTTGACGCTGCCGCTG
ATGTGGCTGGGGCTGATCGCCGCCGCCGACAACTTATATATGCCCGCAAAGCCTGCGTTGCTCGGCGCCATCGCGGGCTA
TGTGAGCCTGTGGTCGGTGTGGTGGGTGTTCAAGCAGCTCACCGGCAAGGACGGCATGGGCCACGGCGACTTCAAGCTGC
TGGCCGCGCTGGGTGCGTGGTGCGGCCTGGTGGGGATCCTGCCGATCATCCTGGTGTCGGCGGTCGCCGGTGCGATCATC
GGTTCCATCTGGCTGGCCACGCAGGGGCGCGACCGGGCATCGCCGATTCCGTTCGGGCCCTATCTGGCCATCGCGGGCTG
GATCGTCTTCATGTGGGGCGACCGGCTGATCGGCTGGTACATGGGCGTGGCGGGGCTCGGGGGCTAG

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

48.944

98.611

0.483
  pilD Acinetobacter baumannii D1279779

47.751

100

0.479
  pilD Acinetobacter nosocomialis M2

46.996

98.264

0.462
  pilD Neisseria gonorrhoeae MS11

44.912

98.958

0.444

Multiple sequence alignment