Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JEZ96_RS17045 Genome accession   NZ_CP066370
Coordinates   3840997..3841923 (+) Length   308 a.a.
NCBI ID   WP_025008132.1    Uniprot ID   -
Organism   Shewanella putrefaciens strain ATCC 8071     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3835997..3846923
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JEZ96_RS17030 - 3836927..3837400 (+) 474 WP_025008133.1 type IV pilin protein -
  JEZ96_RS17035 pilB 3837475..3839184 (+) 1710 WP_061783195.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JEZ96_RS17040 pilC 3839566..3840831 (+) 1266 WP_011787902.1 type II secretion system F family protein Machinery gene
  JEZ96_RS17045 pilD 3840997..3841923 (+) 927 WP_025008132.1 A24 family peptidase Machinery gene
  JEZ96_RS17050 coaE 3842266..3842883 (+) 618 WP_128090233.1 dephospho-CoA kinase -
  JEZ96_RS17055 zapD 3842876..3843610 (+) 735 WP_011787899.1 cell division protein ZapD -
  JEZ96_RS17060 yacG 3843768..3843977 (+) 210 WP_011920039.1 DNA gyrase inhibitor YacG -
  JEZ96_RS17065 mutT 3844029..3844433 (+) 405 WP_011787897.1 8-oxo-dGTP diphosphatase MutT -
  JEZ96_RS17070 - 3844982..3845518 (+) 537 WP_011787896.1 thioredoxin family protein -
  JEZ96_RS17075 - 3845786..3846712 (-) 927 WP_061783194.1 exopolyphosphatase -

Sequence

Protein


Download         Length: 308 a.a.        Molecular weight: 34356.68 Da        Isoelectric Point: 6.5934

>NTDB_id=519515 JEZ96_RS17045 WP_025008132.1 3840997..3841923(+) (pilD) [Shewanella putrefaciens strain ATCC 8071]
MTEFITLLGQSFEQSPWLFVTLSFIFAATIGSFLNVVIHRLPIMMKREWQQECNQYLQEYHADIVNQVGIDRLNKPIDSY
PEKYNIVVPGSACPQCKTAIKPWHNLPVLGWLILRGKCAACHAPISTRYPIIELITGLLIAALAWHFGPSWQFVFASLLT
FVLIALTGIDLDEMLLPDQLTLPLLWLGLLLNLHHTFASPTDAIIGAAAGYLSLWSIFWVFKLLTGKEGMGYGDFKLLAV
FGAWLGWQMLPLVILLSSLVGAVVGIGMIISKRNQMDNPIPFGPYIAAAGWIALVWGNTIIDWYLGTL

Nucleotide


Download         Length: 927 bp        

>NTDB_id=519515 JEZ96_RS17045 WP_025008132.1 3840997..3841923(+) (pilD) [Shewanella putrefaciens strain ATCC 8071]
ATGACTGAATTTATCACTTTATTAGGCCAATCTTTTGAACAGAGTCCTTGGCTCTTCGTCACCTTAAGCTTTATTTTTGC
CGCGACTATTGGCAGTTTTCTGAATGTGGTCATCCACCGACTCCCTATCATGATGAAGCGTGAATGGCAGCAGGAATGTA
ATCAATATTTACAGGAATACCATGCGGATATCGTTAACCAAGTCGGTATCGATAGGCTTAATAAACCCATAGATAGCTAT
CCCGAAAAGTACAATATTGTGGTGCCAGGCTCAGCTTGCCCTCAGTGTAAAACCGCCATCAAACCTTGGCATAATTTGCC
AGTTCTCGGTTGGTTAATCCTTAGGGGGAAATGCGCCGCCTGTCATGCACCTATCTCGACCCGTTATCCGATTATTGAAT
TAATCACAGGTTTACTGATCGCAGCTCTAGCTTGGCATTTTGGCCCCAGTTGGCAATTTGTTTTTGCCTCTTTACTCACC
TTTGTATTGATTGCGCTGACTGGTATAGATCTGGATGAAATGTTATTACCGGATCAGTTAACACTGCCCCTACTGTGGCT
TGGGCTATTACTCAATTTACACCATACCTTTGCTAGCCCAACGGATGCCATTATCGGTGCAGCCGCAGGCTATTTAAGCC
TATGGTCAATTTTCTGGGTGTTTAAGTTACTCACAGGTAAAGAAGGTATGGGCTATGGCGACTTTAAACTGTTGGCCGTT
TTTGGTGCTTGGCTTGGCTGGCAAATGTTGCCACTGGTGATTTTACTCTCCTCATTAGTGGGTGCTGTTGTGGGCATTGG
CATGATTATCAGCAAACGTAATCAGATGGATAACCCTATTCCCTTTGGCCCTTATATTGCCGCCGCAGGCTGGATTGCAC
TGGTTTGGGGAAACACTATCATCGACTGGTATTTAGGGACACTATAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(25-147)

Type IV leader peptidase family (Peptidase_A24)

(159-266)


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

53.156

97.727

0.519
  pilD Vibrio campbellii strain DS40M4

51.333

97.403

0.5
  pilD Acinetobacter baumannii D1279779

48.789

93.831

0.458
  pilD Acinetobacter nosocomialis M2

48.789

93.831

0.458
  pilD Neisseria gonorrhoeae MS11

43.448

94.156

0.409