Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   EIY89_RS02195 Genome accession   NZ_CP034246
Coordinates   463853..464767 (-) Length   304 a.a.
NCBI ID   WP_190534336.1    Uniprot ID   -
Organism   Shewanella algae strain VGH117     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 458853..469767
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EIY89_RS02170 (EIY89_02165) - 461515..461778 (-) 264 Protein_403 transposase -
  EIY89_RS02175 (EIY89_02170) mutT 461849..462247 (-) 399 WP_025012058.1 8-oxo-dGTP diphosphatase MutT -
  EIY89_RS02180 (EIY89_02175) yacG 462247..462459 (-) 213 WP_025886789.1 DNA gyrase inhibitor YacG -
  EIY89_RS02185 (EIY89_02180) zapD 462504..463244 (-) 741 WP_028779562.1 cell division protein ZapD -
  EIY89_RS02190 (EIY89_02185) coaE 463241..463852 (-) 612 WP_025012056.1 dephospho-CoA kinase -
  EIY89_RS02195 (EIY89_02190) pilD 463853..464767 (-) 915 WP_190534336.1 A24 family peptidase Machinery gene
  EIY89_RS02200 (EIY89_02195) pilC 464837..466105 (-) 1269 WP_190534339.1 type II secretion system F family protein Machinery gene
  EIY89_RS02205 (EIY89_02200) pilB 466266..467972 (-) 1707 WP_190534342.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EIY89_RS02210 (EIY89_02205) pilA/pilAI 468042..468488 (-) 447 WP_190534345.1 pilin Machinery gene

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33867.22 Da        Isoelectric Point: 6.8268

>NTDB_id=330184 EIY89_RS02195 WP_190534336.1 463853..464767(-) (pilD) [Shewanella algae strain VGH117]
MSEFIDVLSHNQWLFLVLCFLFASVIGSFLNVVIHRLPVMMKREWQQECNQYLQEYQPEFAKQLGEAKLNAPIDNYPAKY
NLLLPKSACPKCGAHIKPWHNLPIIGYLLLGGKCASCNTAISARYPIFELLTALLISTLGWYFGPTLQFVYAAILTFGLI
ALSGIDLDEMLLPDQITLPLLWLGLLVNISGTFTNLTDATIGAAAGYLSLWSVYWLFKLLTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGALVGILLILFKNLNRGNPIPFGPYIAIAGWVALVWGQQIVDWYLGTL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=330184 EIY89_RS02195 WP_190534336.1 463853..464767(-) (pilD) [Shewanella algae strain VGH117]
ATGTCAGAATTTATTGACGTATTGAGCCACAACCAGTGGCTCTTTCTTGTTCTCTGTTTTTTGTTTGCCTCAGTAATAGG
TAGCTTTCTCAATGTGGTAATTCACCGCCTGCCGGTAATGATGAAGCGCGAATGGCAGCAGGAATGCAATCAATACCTTC
AGGAATATCAACCCGAATTCGCCAAACAGCTGGGTGAAGCCAAGCTTAATGCACCGATAGATAACTACCCGGCCAAATAC
AATCTGTTACTGCCGAAGTCTGCCTGCCCCAAGTGTGGCGCCCATATCAAACCCTGGCACAACCTCCCCATAATCGGCTA
TTTGTTGCTTGGCGGTAAATGCGCCTCCTGCAACACAGCTATTTCAGCGAGATACCCGATATTTGAGCTGCTGACCGCCC
TGCTTATCAGTACTCTCGGTTGGTATTTTGGCCCGACACTGCAGTTTGTTTACGCCGCTATTCTCACCTTTGGATTGATA
GCCCTCAGCGGGATAGATTTGGATGAAATGCTGCTGCCGGATCAGATTACCCTGCCGCTACTGTGGCTTGGTTTACTGGT
TAATATCTCGGGCACCTTTACTAATCTGACCGATGCCACCATAGGGGCCGCTGCCGGCTATTTAAGCCTCTGGTCGGTCT
ACTGGCTATTTAAACTGCTCACCGGCAAGGAAGGCATGGGCTATGGCGATTTCAAGCTGATGGCATTGTTTGGCGCCTGG
CTTGGCTGGCAGATGCTACCTCTAATTATTCTGCTCTCTTCTCTGGTCGGTGCCCTAGTAGGCATTTTACTTATTCTGTT
CAAGAACCTTAATCGGGGTAACCCTATCCCCTTTGGCCCTTATATTGCTATCGCAGGTTGGGTCGCTTTGGTGTGGGGAC
AACAGATTGTCGACTGGTATTTGGGAACACTCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(154-262)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-143)


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

49.169

99.013

0.487
  pilD Vibrio cholerae strain A1552

50

96.053

0.48
  pilD Acinetobacter nosocomialis M2

48.013

99.342

0.477
  pilD Acinetobacter baumannii D1279779

47.682

99.342

0.474
  pilD Neisseria gonorrhoeae MS11

45.552

92.434

0.421

Multiple sequence alignment