Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPY18_RS17390 Genome accession   NZ_CP046800
Coordinates   2211819..2212688 (-) Length   289 a.a.
NCBI ID   WP_020332198.1    Uniprot ID   S7JCB7
Organism   Vibrio fluvialis strain 2012V-1235     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2206819..2217688
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY18_RS17370 parC 2207859..2210132 (+) 2274 WP_047459105.1 DNA topoisomerase IV subunit A -
  GPY18_RS17375 yacG 2210183..2210380 (-) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  GPY18_RS17380 zapD 2210435..2211175 (-) 741 WP_020332196.1 cell division protein ZapD -
  GPY18_RS17385 coaE 2211208..2211816 (-) 609 WP_158147130.1 dephospho-CoA kinase -
  GPY18_RS17390 pilD 2211819..2212688 (-) 870 WP_020332198.1 A24 family peptidase Machinery gene
  GPY18_RS17395 pilC 2212740..2213966 (-) 1227 WP_020332199.1 type II secretion system F family protein Machinery gene
  GPY18_RS17400 pilB 2214002..2215690 (-) 1689 WP_158147131.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY18_RS17405 pilA 2215700..2216119 (-) 420 WP_047459095.1 pilin Machinery gene
  GPY18_RS17410 nadC 2216351..2217238 (-) 888 WP_104966496.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32267.32 Da        Isoelectric Point: 6.6208

>NTDB_id=408024 GPY18_RS17390 WP_020332198.1 2211819..2212688(-) (pilD) [Vibrio fluvialis strain 2012V-1235]
MDIFNFYPWLFPTLATVLGLIIGSFLNVVIYRLPKIMEREWRQECAESFPEYHIEPPQGILTLSTPRSTCPHCDTPIRVI
DNIPVLSWLLLRGKCSNCHGPISARYPLIELLTASCSLLIALQFGFSWFAVAMLFFTYTLIAATFIDFDTMLLPDQLTLP
LLWAGIALALAGISPISLQDAVIGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSLVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSLLFGHDIAGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=408024 GPY18_RS17390 WP_020332198.1 2211819..2212688(-) (pilD) [Vibrio fluvialis strain 2012V-1235]
ATGGACATTTTTAATTTTTACCCCTGGCTGTTTCCTACGCTGGCGACAGTGCTGGGGTTAATTATCGGCAGTTTCCTCAA
TGTGGTGATTTATCGCCTGCCGAAAATCATGGAGCGCGAGTGGCGTCAGGAGTGTGCGGAATCCTTTCCCGAGTATCATA
TTGAGCCGCCTCAGGGCATTTTAACGCTGAGCACGCCACGTTCCACCTGCCCGCATTGCGATACGCCGATCCGGGTTATC
GACAACATTCCGGTACTGAGCTGGCTGTTGCTGCGTGGTAAATGCTCGAATTGTCACGGCCCTATCAGCGCGCGTTATCC
ACTGATTGAACTGCTGACGGCTTCATGCAGCCTCTTGATTGCGCTGCAATTTGGTTTTAGCTGGTTTGCCGTTGCCATGC
TGTTCTTTACCTATACGCTGATTGCGGCAACCTTCATTGATTTCGATACGATGCTGCTGCCGGATCAGCTTACTCTGCCC
CTACTCTGGGCTGGTATTGCGCTGGCGTTGGCGGGCATCAGCCCGATTTCGCTACAAGATGCGGTGATTGGTGCGATAGC
GGGTTATCTGTCGTTATGGTCGGTGTACTGGCTGTTTAAGCTACTGACAGGCAAAGAAGGCATGGGCTATGGCGACTTTA
AGCTGTTAGCGGCTCTCGGTGCCTGGCTGGGATGGCAGCAACTACCGATCATCATTCTGATGTCATCTCTGGTTGGACTG
GTGTTCGGCCTCATTCAACTGCGTCTGCAAAAGCGCGGCATCGATAAAGCATTTCCGTTCGGACCTTATCTGGCGATTGC
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
  AlphaFold DB S7JCB7

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

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

50.558

93.08

0.471

Multiple sequence alignment