Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPY10_RS12390 Genome accession   NZ_CP046767
Coordinates   2635029..2635898 (-) Length   289 a.a.
NCBI ID   WP_024374403.1    Uniprot ID   A0AAX2LNE1
Organism   Vibrio fluvialis strain 2013V-1300     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2630029..2640898
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY10_RS12370 parC 2631069..2633342 (+) 2274 WP_158151728.1 DNA topoisomerase IV subunit A -
  GPY10_RS12375 yacG 2633393..2633590 (-) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  GPY10_RS12380 zapD 2633645..2634385 (-) 741 WP_020332196.1 cell division protein ZapD -
  GPY10_RS12385 coaE 2634418..2635026 (-) 609 WP_061056140.1 dephospho-CoA kinase -
  GPY10_RS12390 pilD 2635029..2635898 (-) 870 WP_024374403.1 prepilin peptidase Machinery gene
  GPY10_RS12395 pilC 2635950..2637176 (-) 1227 WP_020332199.1 type II secretion system F family protein Machinery gene
  GPY10_RS12400 pilB 2637212..2638900 (-) 1689 WP_158151729.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY10_RS12405 pilA 2638907..2639329 (-) 423 WP_158125403.1 pilin Machinery gene
  GPY10_RS12410 nadC 2639559..2640446 (-) 888 WP_158129993.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32248.27 Da        Isoelectric Point: 6.4655

>NTDB_id=407428 GPY10_RS12390 WP_024374403.1 2635029..2635898(-) (pilD) [Vibrio fluvialis strain 2013V-1300]
MDIFNFYPWLFPTLATVLGLIIGSFLNVVIYRLPKIMEREWRQECAESFPEYHIEPPQGILTLSTPRSTCPHCDTPIRVI
DNIPVLSWLLLRGKCSNCQGSISARYPLIELLTASCSLLIALQFGFSWFAVAMLFFTYTLIAATFIDFDTMLLPDQLTLP
LLWAGIALALAGISPISLQDAVIGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSLVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSLLFGHDIAGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=407428 GPY10_RS12390 WP_024374403.1 2635029..2635898(-) (pilD) [Vibrio fluvialis strain 2013V-1300]
ATGGACATTTTTAATTTTTACCCCTGGCTGTTTCCTACGCTGGCGACAGTGCTGGGGTTAATTATCGGCAGTTTCCTCAA
TGTGGTGATTTATCGCCTGCCGAAAATCATGGAGCGCGAGTGGCGTCAGGAGTGTGCGGAATCCTTTCCCGAGTATCATA
TTGAACCGCCTCAGGGCATTTTAACGCTGAGCACGCCACGTTCCACCTGCCCGCATTGCGATACTCCGATCCGGGTTATC
GACAACATTCCGGTACTGAGCTGGCTTTTGCTGCGTGGTAAATGCTCGAATTGTCAGGGCTCTATTAGCGCGCGTTATCC
ACTGATTGAACTGCTGACGGCTTCATGCAGCCTCTTGATTGCGCTGCAATTTGGTTTTAGCTGGTTTGCCGTTGCCATGC
TGTTCTTTACCTATACGCTGATTGCGGCAACCTTCATAGATTTCGATACGATGCTGCTGCCGGATCAGCTTACTCTGCCC
CTACTCTGGGCTGGTATTGCACTGGCATTGGCGGGCATCAGCCCGATTTCGCTACAAGATGCGGTGATTGGTGCGATAGC
GGGTTATCTGTCGTTATGGTCGGTGTACTGGCTGTTTAAGCTACTGACAGGCAAAGAAGGCATGGGCTATGGCGACTTTA
AGCTGTTAGCGGCTCTCGGTGCCTGGCTGGGATGGCAGCAACTACCGATCATCATTCTGATGTCATCTCTGGTTGGACTG
GTGTTCGGCCTCATTCAACTGCGTCTGCAAAAGCGCGGCATTGATAAAGCATTTCCCTTCGGGCCTTATCTGGCGATTGC
AGGCTGGTTATCCCTGCTGTTTGGTCATGACATTGCGGGTTGGTATTTTCATTCGGTATTAGGATTCTGA

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

78.472

99.654

0.782
  pilD Vibrio campbellii strain DS40M4

77.778

99.654

0.775
  pilD Acinetobacter baumannii D1279779

52.92

94.81

0.502
  pilD Acinetobacter nosocomialis M2

52.555

94.81

0.498
  pilD Neisseria gonorrhoeae MS11

50.929

93.08

0.474

Multiple sequence alignment