Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPY43_RS09485 Genome accession   NZ_CP046797
Coordinates   2064058..2064927 (+) Length   289 a.a.
NCBI ID   WP_004729087.1    Uniprot ID   -
Organism   Vibrio furnissii strain 2013V-1001     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2059058..2069927
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY43_RS09465 nadC 2059423..2060310 (+) 888 WP_154180385.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY43_RS09470 - 2060557..2061006 (+) 450 WP_055466517.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GPY43_RS09475 pilB 2061013..2062701 (+) 1689 WP_158107764.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY43_RS09480 pilC 2062780..2064006 (+) 1227 WP_004729085.1 type II secretion system F family protein Machinery gene
  GPY43_RS09485 pilD 2064058..2064927 (+) 870 WP_004729087.1 A24 family peptidase Machinery gene
  GPY43_RS09490 coaE 2064930..2065538 (+) 609 WP_158107765.1 dephospho-CoA kinase -
  GPY43_RS09495 zapD 2065571..2066311 (+) 741 WP_004729090.1 cell division protein ZapD -
  GPY43_RS09500 yacG 2066369..2066566 (+) 198 WP_004729092.1 DNA gyrase inhibitor YacG -
  GPY43_RS09505 parC 2066659..2068932 (-) 2274 WP_004729093.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32204.28 Da        Isoelectric Point: 6.9289

>NTDB_id=407951 GPY43_RS09485 WP_004729087.1 2064058..2064927(+) (pilD) [Vibrio furnissii strain 2013V-1001]
MDIFTFYPWLFPTLATLLGLIIGSFLNVVIYRLPKIMEREWRQDCAESFPEYHIEPPQGVLTLSTPRSTCPHCDTPIRII
DNIPVLSWLLLRGKCSQCHAPISARYPLIESFTALCSLAIALQFGFSWFAVALLFFSYVLIAATFIDFDTMLLPDQLTLP
LMWGGIALALAGISPITLHDAVIGAMAGYLALWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSVVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSALYGQAIVGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=407951 GPY43_RS09485 WP_004729087.1 2064058..2064927(+) (pilD) [Vibrio furnissii strain 2013V-1001]
ATGGACATTTTTACTTTCTATCCCTGGCTGTTTCCCACGCTGGCCACCTTGCTGGGTCTGATCATCGGCAGTTTTCTCAA
TGTGGTGATCTATCGCTTGCCGAAAATCATGGAGCGCGAGTGGCGTCAAGACTGTGCCGAGTCCTTTCCGGAATACCACA
TTGAACCGCCCCAAGGTGTGTTAACGCTCAGCACGCCCCGTTCCACCTGCCCACATTGTGATACACCCATTCGTATCATT
GACAATATTCCGGTGCTGAGCTGGCTGCTACTGCGCGGCAAGTGCTCGCAGTGCCACGCACCCATCAGCGCTCGATACCC
ACTGATTGAATCGTTTACGGCGTTATGCAGCTTGGCGATTGCTTTGCAGTTTGGTTTTAGCTGGTTTGCGGTGGCTTTGC
TGTTTTTCAGTTATGTGCTGATTGCGGCAACCTTCATCGACTTCGACACCATGCTGCTGCCTGACCAACTGACGCTGCCG
TTGATGTGGGGCGGTATCGCACTCGCGCTAGCGGGCATCAGCCCAATCACGTTGCACGATGCCGTGATCGGCGCGATGGC
GGGGTATCTGGCGCTGTGGTCCGTCTACTGGCTGTTTAAACTGCTCACTGGCAAGGAAGGCATGGGGTACGGTGACTTTA
AGTTGTTGGCCGCGCTGGGCGCTTGGCTCGGATGGCAACAACTGCCGATCATCATTTTGATGTCTTCAGTGGTTGGCCTC
GTGTTTGGTCTGATTCAACTGCGCCTGCAAAAACGCGGCATAGATAAAGCCTTCCCGTTTGGCCCTTATCTGGCGATTGC
GGGTTGGCTGTCAGCGCTATACGGTCAGGCGATCGTTGGCTGGTATTTTCACTCCGTATTAGGATTTTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


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

79.167

99.654

0.789
  pilD Vibrio campbellii strain DS40M4

77.083

99.654

0.768
  pilD Acinetobacter nosocomialis M2

52.574

94.118

0.495
  pilD Acinetobacter baumannii D1279779

51.812

95.502

0.495
  pilD Neisseria gonorrhoeae MS11

47.584

93.08

0.443

Multiple sequence alignment