Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   F1E05_RS19280 Genome accession   NZ_CP043929
Coordinates   4345872..4346738 (-) Length   288 a.a.
NCBI ID   WP_150051377.1    Uniprot ID   -
Organism   Methylomonas rhizoryzae strain GJ1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4340872..4351738
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  F1E05_RS19250 - 4341881..4342105 (+) 225 WP_150051365.1 sulfurtransferase TusA family protein -
  F1E05_RS19255 argJ 4342128..4343342 (+) 1215 WP_150051367.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  F1E05_RS19260 - 4343343..4344314 (+) 972 WP_150051369.1 Nudix family hydrolase -
  F1E05_RS19265 yacG 4344286..4344489 (-) 204 WP_150051371.1 DNA gyrase inhibitor YacG -
  F1E05_RS19270 zapD 4344492..4345262 (-) 771 WP_150051373.1 cell division protein ZapD -
  F1E05_RS19275 coaE 4345259..4345870 (-) 612 WP_150051375.1 dephospho-CoA kinase -
  F1E05_RS19280 pilD 4345872..4346738 (-) 867 WP_150051377.1 A24 family peptidase Machinery gene
  F1E05_RS19285 pilC 4346811..4348031 (-) 1221 WP_150051379.1 type II secretion system F family protein Machinery gene
  F1E05_RS19290 pilB 4348035..4349747 (-) 1713 WP_150051381.1 type IV-A pilus assembly ATPase PilB Machinery gene
  F1E05_RS19295 - 4349846..4350640 (-) 795 WP_150051383.1 response regulator -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 32035.27 Da        Isoelectric Point: 7.2955

>NTDB_id=386601 F1E05_RS19280 WP_150051377.1 4345872..4346738(-) (pilD) [Methylomonas rhizoryzae strain GJ1]
MLVETLQQSMLMLVSLTFVLGLMIGSFLNVVVYRLPLMMQKAWRRDCLEYLELPPEQDAEAFNLIWPGSRCPSCRAEIKP
HQNIPILSYLLLRGKCANCSAHITWRYPLLEAFTAISSAMVALHFGYGIALAFALLLTWSLIALSVIDIDHQLLPDSITL
PLLWLGLLLSLFSLYADSHSAIIGAIAGYLSLWSIYWLFKLLTGKEGMGYGDFKLLALLGAWLGWQFLPLIIVLASFVGA
LIGVVSIVLKRQDISRPIPFGPYLAGAGWLALIYGREINQFYLGITGL

Nucleotide


Download         Length: 867 bp        

>NTDB_id=386601 F1E05_RS19280 WP_150051377.1 4345872..4346738(-) (pilD) [Methylomonas rhizoryzae strain GJ1]
ATGTTAGTCGAAACCTTGCAGCAATCCATGCTAATGCTGGTGAGCCTGACATTCGTGTTGGGCTTAATGATTGGTAGCTT
TTTGAATGTCGTAGTTTATCGGCTCCCGCTGATGATGCAAAAGGCTTGGCGCAGAGATTGTCTGGAGTATTTGGAGTTAC
CGCCGGAACAGGATGCCGAGGCTTTCAACTTGATTTGGCCTGGCTCGCGTTGTCCAAGTTGCCGAGCCGAAATCAAACCG
CATCAAAATATTCCTATCTTGAGTTATCTTTTGCTTCGCGGTAAATGCGCCAATTGCTCCGCACACATTACTTGGCGTTA
TCCATTATTAGAGGCTTTTACCGCGATTTCGTCCGCTATGGTTGCCCTTCATTTTGGATACGGAATAGCGCTGGCATTTG
CTTTATTGCTGACCTGGAGTCTAATCGCGTTAAGTGTTATCGACATAGATCACCAATTACTACCGGATTCCATCACCCTG
CCACTGCTCTGGTTAGGCTTATTGCTAAGTTTGTTTTCCCTTTATGCCGACAGTCACAGCGCCATTATCGGAGCGATAGC
CGGTTATCTAAGCCTTTGGAGTATTTACTGGCTATTCAAATTGCTTACCGGGAAAGAAGGTATGGGGTATGGCGACTTTA
AGTTGTTGGCGTTGTTGGGAGCTTGGTTAGGTTGGCAATTTTTGCCGTTGATCATTGTGCTTGCATCGTTCGTTGGCGCG
CTTATCGGCGTTGTTTCGATAGTGTTGAAACGACAGGATATTAGCCGACCCATCCCATTTGGCCCTTATCTGGCGGGGGC
CGGCTGGTTGGCGCTAATTTACGGTAGGGAAATCAACCAATTCTACCTAGGTATTACAGGTTTATAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(19-125)

Type IV leader peptidase family (Peptidase_A24)

(136-244)


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 campbellii strain DS40M4

51.211

100

0.514
  pilD Vibrio cholerae strain A1552

52.381

94.792

0.497
  pilD Acinetobacter baumannii D1279779

50

97.222

0.486
  pilD Acinetobacter nosocomialis M2

50

97.222

0.486
  pilD Neisseria gonorrhoeae MS11

50.388

89.583

0.451

Multiple sequence alignment