Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   EPB61_RS11180 Genome accession   NZ_CP035696
Coordinates   790582..791451 (+) Length   289 a.a.
NCBI ID   WP_154180388.1    Uniprot ID   -
Organism   Vibrio furnissii strain 2419-04     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 785582..796451
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EPB61_RS11160 nadC 785947..786834 (+) 888 WP_154180385.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EPB61_RS11165 - 787081..787530 (+) 450 WP_055466517.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  EPB61_RS11170 pilB 787537..789225 (+) 1689 WP_154180386.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EPB61_RS11175 pilC 789304..790530 (+) 1227 WP_154180387.1 type II secretion system F family protein Machinery gene
  EPB61_RS11180 pilD 790582..791451 (+) 870 WP_154180388.1 A24 family peptidase Machinery gene
  EPB61_RS11185 coaE 791454..792062 (+) 609 WP_154180389.1 dephospho-CoA kinase -
  EPB61_RS11190 zapD 792095..792835 (+) 741 WP_154180390.1 cell division protein ZapD -
  EPB61_RS11195 yacG 792893..793090 (+) 198 WP_004729092.1 DNA gyrase inhibitor YacG -
  EPB61_RS11200 parC 793172..795445 (-) 2274 WP_004729093.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32170.26 Da        Isoelectric Point: 6.9289

>NTDB_id=343816 EPB61_RS11180 WP_154180388.1 790582..791451(+) (pilD) [Vibrio furnissii strain 2419-04]
MDIFTFYPWLFPTLATLLGLIIGSFLNVVIYRLPKIMEREWRQDCAESFPEYHIEPPQGVLTLSTPRSTCPHCDTPIRII
DNIPVLSWLLLRGKCSQCHAPISARYPLIESFTALCSLAIALQLGFSWFAVALLFFSYVLIAATFIDFDTMLLPDQLTLP
LMWGGIALALAGISPITLHDAVIGAMAGYLALWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSVVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSALYGQAIVGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=343816 EPB61_RS11180 WP_154180388.1 790582..791451(+) (pilD) [Vibrio furnissii strain 2419-04]
ATGGACATTTTTACTTTCTATCCCTGGCTGTTCCCCACGCTGGCCACCTTGCTGGGTCTGATCATCGGCAGTTTTCTCAA
TGTGGTGATCTATCGCTTGCCGAAAATCATGGAGCGCGAGTGGCGTCAAGACTGTGCCGAGTCCTTTCCGGAATACCACA
TTGAACCGCCCCAAGGTGTGTTAACACTGAGCACGCCCCGTTCCACCTGCCCACATTGCGATACACCCATTCGTATCATT
GACAATATTCCGGTGCTGAGCTGGCTGCTACTGCGCGGCAAGTGCTCGCAGTGCCACGCGCCCATTAGCGCTCGCTACCC
ACTGATTGAATCGTTTACGGCGTTATGCAGCTTGGCGATTGCTTTGCAGCTTGGTTTTAGCTGGTTTGCGGTGGCTTTGC
TGTTTTTCAGTTATGTGCTGATTGCGGCAACCTTTATCGACTTCGACACCATGCTGCTGCCTGACCAACTGACGCTGCCG
TTGATGTGGGGCGGTATCGCACTCGCGCTAGCGGGCATCAGCCCAATCACGTTGCACGATGCCGTGATCGGCGCGATGGC
AGGGTATCTGGCGCTGTGGTCCGTCTACTGGCTGTTTAAACTGCTCACTGGCAAGGAAGGCATGGGGTACGGTGACTTTA
AGTTGTTGGCCGCGCTGGGCGCTTGGCTCGGATGGCAGCAGCTGCCGATCATCATTTTGATGTCTTCGGTGGTCGGCCTG
GTGTTTGGTCTGATTCAACTGCGCCTGCAAAAACGCGGCATAGATAAAGCCTTCCCGTTTGGCCCTTATCTGGCGATTGC
GGGCTGGCTGTCAGCGCTATACGGTCAGGCGATCGTTGGCTGGTATTTTCACTCCGTATTAGGATTTTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-123)


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

78.819

99.654

0.785
  pilD Vibrio campbellii strain DS40M4

76.736

99.654

0.765
  pilD Acinetobacter nosocomialis M2

52.206

94.118

0.491
  pilD Acinetobacter baumannii D1279779

51.449

95.502

0.491
  pilD Neisseria gonorrhoeae MS11

47.584

93.08

0.443

Multiple sequence alignment