Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   BV404_RS01910 Genome accession   NZ_CP019118
Coordinates   396492..397361 (-) Length   289 a.a.
NCBI ID   WP_047459100.1    Uniprot ID   -
Organism   Vibrio fluvialis strain 12605     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 391492..402361
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BV404_RS01890 parC 392532..394805 (+) 2274 WP_044366754.1 DNA topoisomerase IV subunit A -
  BV404_RS01895 yacG 394856..395053 (-) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  BV404_RS01900 zapD 395108..395848 (-) 741 WP_075988151.1 cell division protein ZapD -
  BV404_RS01905 coaE 395881..396489 (-) 609 WP_075988152.1 dephospho-CoA kinase -
  BV404_RS01910 pilD 396492..397361 (-) 870 WP_047459100.1 prepilin peptidase Machinery gene
  BV404_RS01915 pilC 397413..398639 (-) 1227 WP_075988153.1 type II secretion system F family protein Machinery gene
  BV404_RS01920 pilB 398675..400363 (-) 1689 WP_075988154.1 type IV-A pilus assembly ATPase PilB Machinery gene
  BV404_RS01925 - 400363..400791 (-) 429 WP_044364133.1 pilin -
  BV404_RS01930 nadC 401023..401910 (-) 888 WP_044364132.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32258.31 Da        Isoelectric Point: 6.4655

>NTDB_id=213261 BV404_RS01910 WP_047459100.1 396492..397361(-) (pilD) [Vibrio fluvialis strain 12605]
MDIFNFYPWLFPTLATVLGLIIGSFLNVVIYRLPKIMEREWRQECAESFPEYHIEPPQGILTLSTPRSTCPHCDTPIRVI
DNIPVLSWLLLRGKCSNCQGPISARYPLIELLTASCSLLIALQFGFSWFAVAMLFFTYTLIAATFIDFDTMLLPDQLTLP
LLWAGIALALAGISPISLQDAVIGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSLVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSLLFGHDIAGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=213261 BV404_RS01910 WP_047459100.1 396492..397361(-) (pilD) [Vibrio fluvialis strain 12605]
ATGGACATTTTTAATTTTTACCCCTGGCTGTTTCCTACGCTGGCGACAGTGCTGGGGTTAATTATCGGCAGTTTCCTCAA
TGTGGTGATTTATCGCCTGCCGAAAATCATGGAGCGCGAGTGGCGTCAGGAGTGTGCGGAATCCTTTCCCGAGTATCATA
TTGAGCCGCCTCAGGGCATTTTAACGCTGAGCACGCCACGTTCCACCTGCCCGCATTGCGATACGCCGATCCGGGTTATC
GACAACATTCCGGTACTGAGCTGGCTGTTACTGCGTGGTAAATGCTCGAATTGTCAGGGCCCTATCAGCGCGCGTTATCC
ACTGATTGAACTGCTGACGGCTTCATGCAGCCTCTTGATTGCGCTGCAATTTGGTTTTAGCTGGTTTGCCGTTGCCATGC
TGTTCTTTACCTATACGCTGATTGCGGCAACCTTCATTGATTTCGATACGATGCTGCTGCCGGATCAGCTTACTCTGCCC
CTACTCTGGGCAGGTATTGCACTGGCGTTGGCGGGCATCAGCCCGATTTCGCTACAAGATGCGGTGATTGGTGCGATAGC
AGGTTATCTGTCGTTATGGTCAGTGTACTGGCTGTTTAAGCTACTGACAGGCAAAGAAGGTATGGGCTATGGCGACTTTA
AGCTGTTAGCGGCTCTCGGTGCCTGGCTGGGATGGCAGCAACTACCGATCATCATTCTGATGTCATCTCTGGTTGGACTG
GTGTTCGGCCTCATTCAACTGCGTCTGCAAAAGCGCGGCATTGATAAAGCATTTCCCTTCGGGCCTTATCTGGCGATTGC
AGGCTGGTTATCCCTGCTGTTTGGCCATGACATTGCGGGTTGGTATTTTCATTCGGTATTAGGATTCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)


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

78.125

99.654

0.779
  pilD Acinetobacter baumannii D1279779

53.285

94.81

0.505
  pilD Acinetobacter nosocomialis M2

52.92

94.81

0.502
  pilD Neisseria gonorrhoeae MS11

50.929

93.08

0.474

Multiple sequence alignment