Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPY38_RS00625 Genome accession   NZ_CP046795
Coordinates   128540..129409 (-) Length   289 a.a.
NCBI ID   WP_014204458.1    Uniprot ID   A0A0Q2XW48
Organism   Vibrio furnissii strain 2420-04     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 123540..134409
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY38_RS00605 parC 124535..126808 (+) 2274 WP_004729093.1 DNA topoisomerase IV subunit A -
  GPY38_RS00610 yacG 126901..127098 (-) 198 WP_004729092.1 DNA gyrase inhibitor YacG -
  GPY38_RS00615 zapD 127156..127896 (-) 741 WP_004729090.1 cell division protein ZapD -
  GPY38_RS00620 coaE 127929..128537 (-) 609 WP_158140193.1 dephospho-CoA kinase -
  GPY38_RS00625 pilD 128540..129409 (-) 870 WP_014204458.1 A24 family peptidase Machinery gene
  GPY38_RS00630 pilC 129461..130687 (-) 1227 WP_004729085.1 type II secretion system F family protein Machinery gene
  GPY38_RS00635 pilB 130766..132454 (-) 1689 WP_158140195.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY38_RS00640 - 132461..132910 (-) 450 WP_158140197.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GPY38_RS00645 nadC 133158..134045 (-) 888 WP_154180385.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32195.27 Da        Isoelectric Point: 6.8269

>NTDB_id=407894 GPY38_RS00625 WP_014204458.1 128540..129409(-) (pilD) [Vibrio furnissii strain 2420-04]
MDIFTFYPWLFPTLATLLGLIIGSFLNVVIYRLPKIMEREWRQDCAESFPEYHIEPPQGVLTLSTPRSTCPHCDTPIRII
DNIPVLSWLLLRGKCSQCHAPISARYPLIESFTALCSLAIALQFGFSWFAVALLFFSYVLIAATFIDFDTMLLPDQLTLP
LMWGGIALALAGISPITLQDAVIGAMAGYLALWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSVVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSALYGQAIVGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=407894 GPY38_RS00625 WP_014204458.1 128540..129409(-) (pilD) [Vibrio furnissii strain 2420-04]
ATGGACATTTTTACTTTCTATCCCTGGCTGTTTCCCACGCTGGCCACCTTGCTGGGTCTGATCATCGGCAGTTTTCTCAA
TGTGGTGATCTATCGCTTGCCGAAAATCATGGAGCGCGAGTGGCGTCAAGACTGTGCCGAGTCCTTTCCGGAATACCACA
TTGAACCGCCCCAAGGTGTGTTAACACTCAGCACGCCCCGTTCCACCTGCCCACATTGCGATACACCGATTCGTATCATC
GACAATATTCCGGTGCTGAGCTGGCTGCTACTGCGCGGCAAGTGCTCGCAGTGCCACGCGCCCATTAGCGCTCGCTACCC
ACTGATTGAATCGTTTACGGCGTTATGCAGCTTGGCGATTGCTTTGCAGTTTGGTTTTAGCTGGTTTGCGGTGGCTTTGC
TGTTTTTCAGTTATGTACTGATTGCGGCAACCTTCATCGACTTCGACACCATGCTGCTGCCTGACCAACTGACGCTACCG
TTGATGTGGGGCGGTATCGCACTCGCGCTAGCGGGCATCAGCCCAATCACGTTGCAAGATGCCGTGATCGGAGCGATGGC
GGGGTATCTGGCACTGTGGTCCGTCTACTGGCTGTTTAAACTGCTCACCGGCAAGGAAGGCATGGGGTACGGTGACTTTA
AGTTGTTGGCCGCACTGGGCGCTTGGCTCGGATGGCAGCAGCTGCCGATCATCATTTTGATGTCTTCAGTGGTTGGCCTC
GTGTTTGGTCTGATTCAACTGCGCCTGCAAAAACGCGGCATAGATAAAGCCTTCCCGTTTGGCCCTTATCTGGCGATTGC
GGGTTGGCTGTCAGCGCTATATGGTCAGGCGATCGTTGGCTGGTATTTTCACTCCGTATTAGGATTTTGA

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

79.167

99.654

0.789
  pilD Vibrio campbellii strain DS40M4

77.431

99.654

0.772
  pilD Acinetobacter nosocomialis M2

52.574

94.118

0.495
  pilD Acinetobacter baumannii D1279779

51.812

95.502

0.495
  pilD Neisseria gonorrhoeae MS11

47.955

93.08

0.446

Multiple sequence alignment