Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   QYM03_RS02305 Genome accession   NZ_CP129401
Coordinates   487216..488130 (-) Length   304 a.a.
NCBI ID   WP_208163199.1    Uniprot ID   -
Organism   Shewanella algae strain MCCC 1A11468     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 482216..493130
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QYM03_RS02285 (QYM03_02285) mutT 485212..485610 (-) 399 WP_025012058.1 8-oxo-dGTP diphosphatase MutT -
  QYM03_RS02290 (QYM03_02290) yacG 485610..485822 (-) 213 WP_025886789.1 DNA gyrase inhibitor YacG -
  QYM03_RS02295 (QYM03_02295) zapD 485867..486607 (-) 741 WP_028779562.1 cell division protein ZapD -
  QYM03_RS02300 (QYM03_02300) coaE 486604..487215 (-) 612 WP_025012056.1 dephospho-CoA kinase -
  QYM03_RS02305 (QYM03_02305) pilD 487216..488130 (-) 915 WP_208163199.1 A24 family peptidase Machinery gene
  QYM03_RS02310 (QYM03_02310) pilC 488200..489465 (-) 1266 WP_054744931.1 type II secretion system F family protein Machinery gene
  QYM03_RS02315 (QYM03_02315) pilB 489618..491324 (-) 1707 WP_156020398.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QYM03_RS02320 (QYM03_02320) - 491334..491747 (-) 414 WP_054744933.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 33814.20 Da        Isoelectric Point: 7.2729

>NTDB_id=853000 QYM03_RS02305 WP_208163199.1 487216..488130(-) (pilD) [Shewanella algae strain MCCC 1A11468]
MSEFIAVLSHNQWLFLVLCFLFASVIGSFLNVVIHRLPVMMKREWQQECNQYLQEYQPEFAKHLGEAKLNAPIDNYPAKY
NLILPKSACPKCGAHIKPWHNLPIIGYLLLGGKCASCNTAISARYPIFELLTALLISTLGWYLGPTLQFVYATILTFGLI
ALSGIDLDEMLLPDQITLPLLWLGLLVNISGTFTNLTDATIGAAAGYLSLWSVYWLFKLLTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGALVGVLLILFKNLNRGNPIPFGPYIAIAGWVALVWGQQIVDWYLGTL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=853000 QYM03_RS02305 WP_208163199.1 487216..488130(-) (pilD) [Shewanella algae strain MCCC 1A11468]
ATGTCAGAATTTATTGCCGTATTGAGCCACAACCAGTGGCTCTTTCTTGTTCTCTGTTTTTTGTTTGCCTCTGTAATAGG
CAGCTTTCTCAATGTGGTGATCCACCGCCTGCCGGTAATGATGAAGCGCGAATGGCAGCAGGAATGCAATCAATACCTGC
AGGAATATCAACCCGAATTCGCCAAACACCTGGGTGAAGCCAAGCTTAATGCACCAATAGATAACTATCCGGCCAAATAC
AATCTGATACTGCCGAAATCGGCCTGCCCCAAGTGTGGCGCCCATATCAAACCCTGGCACAACCTACCCATAATCGGCTA
TTTGTTGCTTGGCGGTAAATGCGCCTCCTGCAACACAGCTATTTCAGCGAGATACCCAATATTTGAGCTGCTGACCGCCC
TGCTTATCAGTACGCTCGGTTGGTATTTGGGCCCGACACTGCAGTTTGTTTACGCCACTATTCTCACCTTTGGATTGATA
GCCCTCAGCGGGATAGATTTGGATGAAATGCTGCTGCCGGATCAGATTACCCTGCCGCTACTGTGGCTTGGTTTACTGGT
TAATATCTCAGGCACCTTTACTAATCTGACCGATGCCACCATAGGGGCCGCTGCCGGCTATTTAAGCCTCTGGTCGGTCT
ACTGGCTATTTAAACTGCTCACCGGCAAGGAAGGCATGGGCTATGGCGATTTCAAGCTGATGGCACTGTTTGGCGCCTGG
CTTGGCTGGCAGATGTTACCTCTAATTATTCTGCTCTCTTCTCTGGTCGGTGCCCTAGTAGGCGTTTTACTTATTCTGTT
CAAGAACCTTAATCGGGGTAACCCTATCCCCTTTGGCCCTTATATTGCTATCGCAGGTTGGGTCGCTTTGGTGTGGGGAC
AACAGATTGTCGACTGGTATTTGGGAACACTCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(154-262)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-141)


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

48.837

99.013

0.484
  pilD Acinetobacter nosocomialis M2

48.344

99.342

0.48
  pilD Vibrio cholerae strain A1552

49.658

96.053

0.477
  pilD Acinetobacter baumannii D1279779

48.013

99.342

0.477
  pilD Neisseria gonorrhoeae MS11

45.196

92.434

0.418