Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   O8413_RS08975 Genome accession   NZ_CP115188
Coordinates   1950381..1951250 (+) Length   289 a.a.
NCBI ID   WP_004729087.1    Uniprot ID   -
Organism   Vibrio furnissii strain MT14     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1945381..1956250
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  O8413_RS08955 (O8413_08955) nadC 1945746..1946633 (+) 888 WP_154180385.1 carboxylating nicotinate-nucleotide diphosphorylase -
  O8413_RS08960 (O8413_08960) - 1946880..1947329 (+) 450 WP_055466517.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  O8413_RS08965 (O8413_08965) pilB 1947336..1949024 (+) 1689 WP_283512448.1 type IV-A pilus assembly ATPase PilB Machinery gene
  O8413_RS08970 (O8413_08970) pilC 1949103..1950329 (+) 1227 WP_283512449.1 type II secretion system F family protein Machinery gene
  O8413_RS08975 (O8413_08975) pilD 1950381..1951250 (+) 870 WP_004729087.1 A24 family peptidase Machinery gene
  O8413_RS08980 (O8413_08980) coaE 1951253..1951861 (+) 609 WP_283512450.1 dephospho-CoA kinase -
  O8413_RS08985 (O8413_08985) zapD 1951894..1952634 (+) 741 WP_283512451.1 cell division protein ZapD -
  O8413_RS08990 (O8413_08990) yacG 1952692..1952889 (+) 198 WP_004729092.1 DNA gyrase inhibitor YacG -
  O8413_RS08995 (O8413_08995) parC 1952982..1955255 (-) 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=768805 O8413_RS08975 WP_004729087.1 1950381..1951250(+) (pilD) [Vibrio furnissii strain MT14]
MDIFTFYPWLFPTLATLLGLIIGSFLNVVIYRLPKIMEREWRQDCAESFPEYHIEPPQGVLTLSTPRSTCPHCDTPIRII
DNIPVLSWLLLRGKCSQCHAPISARYPLIESFTALCSLAIALQFGFSWFAVALLFFSYVLIAATFIDFDTMLLPDQLTLP
LMWGGIALALAGISPITLHDAVIGAMAGYLALWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSVVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSALYGQAIVGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=768805 O8413_RS08975 WP_004729087.1 1950381..1951250(+) (pilD) [Vibrio furnissii strain MT14]
ATGGACATTTTTACTTTCTATCCCTGGCTGTTTCCCACGCTGGCCACCTTGTTGGGTCTGATCATCGGCAGTTTTCTCAA
TGTGGTGATCTATCGCTTGCCGAAAATCATGGAGCGCGAGTGGCGTCAAGACTGTGCCGAGTCCTTTCCGGAATACCACA
TTGAACCGCCCCAAGGTGTGTTAACGCTCAGCACGCCCCGTTCCACCTGCCCACATTGCGATACACCGATTCGTATCATC
GACAATATTCCGGTGCTGAGTTGGTTGCTACTGCGCGGCAAGTGCTCGCAGTGCCACGCGCCCATCAGCGCTCGCTACCC
ATTGATCGAATCGTTTACGGCGCTGTGCAGTTTGGCGATTGCTTTGCAGTTTGGTTTTAGCTGGTTTGCAGTAGCTTTGC
TGTTTTTCAGTTATGTGCTGATTGCGGCAACCTTCATCGACTTCGACACCATGCTGCTGCCTGACCAACTGACGCTACCG
TTGATGTGGGGCGGTATCGCACTCGCGCTAGCGGGCATCAGTCCAATCACGTTGCACGATGCCGTGATCGGCGCGATGGC
GGGGTATCTGGCGCTGTGGTCCGTCTACTGGCTGTTTAAACTGCTCACCGGCAAGGAAGGCATGGGGTACGGTGACTTTA
AATTGTTGGCCGCACTGGGCGCTTGGCTCGGATGGCAGCAGCTGCCGATCATCATTTTGATGTCTTCAGTGGTCGGCCTC
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