Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NAF16_RS01710 Genome accession   NZ_CP098021
Coordinates   356928..357797 (-) Length   289 a.a.
NCBI ID   WP_047459100.1    Uniprot ID   -
Organism   Vibrio fluvialis strain V13     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 351928..362797
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NAF16_RS01690 (NAF16_01690) parC 352968..355241 (+) 2274 WP_047459105.1 DNA topoisomerase IV subunit A -
  NAF16_RS01695 (NAF16_01695) yacG 355292..355489 (-) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  NAF16_RS01700 (NAF16_01700) zapD 355544..356284 (-) 741 WP_020332196.1 cell division protein ZapD -
  NAF16_RS01705 (NAF16_01705) coaE 356317..356925 (-) 609 WP_158129989.1 dephospho-CoA kinase -
  NAF16_RS01710 (NAF16_01710) pilD 356928..357797 (-) 870 WP_047459100.1 A24 family peptidase Machinery gene
  NAF16_RS01715 (NAF16_01715) pilC 357849..359075 (-) 1227 WP_158125405.1 type II secretion system F family protein Machinery gene
  NAF16_RS01720 (NAF16_01720) pilB 359111..360799 (-) 1689 WP_158129991.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NAF16_RS01725 (NAF16_01725) - 360813..361229 (-) 417 WP_158129992.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  NAF16_RS01730 (NAF16_01730) nadC 361461..362348 (-) 888 WP_055452471.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


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

>NTDB_id=693540 NAF16_RS01710 WP_047459100.1 356928..357797(-) (pilD) [Vibrio fluvialis strain V13]
MDIFNFYPWLFPTLATVLGLIIGSFLNVVIYRLPKIMEREWRQECAESFPEYHIEPPQGILTLSTPRSTCPHCDTPIRVI
DNIPVLSWLLLRGKCSNCQGPISARYPLIELLTASCSLLIALQFGFSWFAVAMLFFTYTLIAATFIDFDTMLLPDQLTLP
LLWAGIALALAGISPISLQDAVIGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSLVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSLLFGHDIAGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=693540 NAF16_RS01710 WP_047459100.1 356928..357797(-) (pilD) [Vibrio fluvialis strain V13]
ATGGACATTTTTAATTTTTACCCCTGGCTGTTTCCTACGCTGGCGACAGTGCTGGGGTTAATTATCGGCAGTTTCCTCAA
TGTGGTGATTTATCGCCTGCCGAAAATCATGGAGCGCGAGTGGCGTCAGGAGTGTGCGGAATCCTTTCCCGAGTATCATA
TTGAACCGCCTCAGGGCATTTTAACGCTGAGCACGCCACGTTCCACCTGCCCGCATTGCGATACGCCGATCCGGGTTATC
GACAACATTCCGGTACTGAGCTGGCTGTTGCTGCGTGGTAAATGCTCGAATTGTCAGGGCCCTATCAGCGCGCGTTATCC
ACTGATTGAACTGCTGACGGCTTCATGCAGCCTCTTGATTGCGCTGCAATTTGGTTTTAGCTGGTTTGCCGTTGCCATGC
TGTTCTTTACCTATACGCTGATTGCAGCAACCTTCATTGATTTCGATACGATGCTGCTGCCGGATCAGCTTACTCTGCCC
CTACTCTGGGCTGGTATTGCACTGGCATTGGCGGGCATCAGCCCGATTTCGCTACAAGATGCGGTGATTGGTGCGATAGC
GGGTTATCTGTCGTTATGGTCGGTGTACTGGCTGTTTAAGCTACTGACAGGCAAAGAAGGCATGGGCTATGGCGACTTTA
AGCTGTTAGCGGCTCTCGGTGCCTGGTTGGGATGGCAGCAACTACCGATCATCATTCTGATGTCATCTCTGGTTGGACTG
GTGTTCGGCCTCATACAACTGCGTCTGCAAAAGCGCGGCATTGATAAAGCATTTCCCTTCGGGCCTTATCTGGCGATTGC
AGGCTGGCTATCTCTGCTGTTTGGTCATGACATTGCGGGTTGGTATTTTCATTCGGTATTAGGATTCTGA

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