Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPY20_RS12685 Genome accession   NZ_CP046756
Coordinates   1200734..1201603 (-) Length   289 a.a.
NCBI ID   WP_024374403.1    Uniprot ID   A0AAX2LNE1
Organism   Vibrio fluvialis strain 2015AW-0077     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1195734..1206603
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY20_RS12665 parC 1196774..1199047 (+) 2274 WP_158129987.1 DNA topoisomerase IV subunit A -
  GPY20_RS12670 yacG 1199098..1199295 (-) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  GPY20_RS12675 zapD 1199350..1200090 (-) 741 WP_158129988.1 cell division protein ZapD -
  GPY20_RS12680 coaE 1200123..1200731 (-) 609 WP_158129989.1 dephospho-CoA kinase -
  GPY20_RS12685 pilD 1200734..1201603 (-) 870 WP_024374403.1 A24 family peptidase Machinery gene
  GPY20_RS12690 pilC 1201655..1202881 (-) 1227 WP_158129990.1 type II secretion system F family protein Machinery gene
  GPY20_RS12695 pilB 1202917..1204605 (-) 1689 WP_158129991.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY20_RS12700 - 1204619..1205035 (-) 417 WP_158129992.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GPY20_RS12705 nadC 1205267..1206154 (-) 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=407243 GPY20_RS12685 WP_024374403.1 1200734..1201603(-) (pilD) [Vibrio fluvialis strain 2015AW-0077]
MDIFNFYPWLFPTLATVLGLIIGSFLNVVIYRLPKIMEREWRQECAESFPEYHIEPPQGILTLSTPRSTCPHCDTPIRVI
DNIPVLSWLLLRGKCSNCQGSISARYPLIELLTASCSLLIALQFGFSWFAVAMLFFTYTLIAATFIDFDTMLLPDQLTLP
LLWAGIALALAGISPISLQDAVIGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSLVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSLLFGHDIAGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=407243 GPY20_RS12685 WP_024374403.1 1200734..1201603(-) (pilD) [Vibrio fluvialis strain 2015AW-0077]
ATGGACATTTTTAATTTTTACCCCTGGCTGTTTCCTACGCTGGCGACAGTGCTGGGGTTAATTATCGGCAGTTTCCTCAA
TGTGGTGATTTATCGCCTGCCGAAAATCATGGAGCGCGAGTGGCGTCAGGAGTGTGCGGAATCCTTTCCCGAGTATCATA
TTGAACCGCCTCAGGGCATTTTAACGCTGAGCACGCCACGTTCCACCTGCCCGCATTGCGATACGCCGATCCGGGTTATC
GACAACATTCCGGTACTGAGCTGGCTGTTGCTGCGTGGTAAATGCTCGAATTGTCAGGGCTCTATTAGCGCGCGTTATCC
ACTGATTGAACTGCTGACGGCTTCATGCAGCCTCTTGATTGCGCTGCAATTTGGTTTTAGCTGGTTTGCCGTTGCCATGC
TGTTCTTTACCTATACGCTGATTGCAGCAACCTTCATTGATTTCGATACGATGCTGCTGCCGGATCAGCTTACTCTGCCC
CTACTCTGGGCTGGTATTGCACTGGCATTGGCGGGCATCAGCCCGATTTCGCTACAAGATGCGGTGATTGGTGCGATAGC
GGGTTATCTGTCGTTATGGTCGGTGTACTGGCTGTTTAAGCTACTGACAGGCAAAGAAGGCATGGGCTATGGCGACTTTA
AGCTGTTAGCGGCTCTCGGTGCTTGGCTGGGATGGCAGCAACTACCGATCATCATTCTGATGTCATCTCTGGTTGGACTG
GTGTTCGGCCTCATTCAACTGCGTCTGCAAAAGCGCGGCATTGATAAAGCATTTCCCTTCGGGCCTTATCTGGCGATTGC
AGGCTGGCTGTCTCTGCTGTTTGGTCATGACATTGCGGGTTGGTATTTTCATTCGGTATTAGGATTCTGA

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