Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NIN90_RS12880 Genome accession   NZ_CP100422
Coordinates   2787788..2788657 (+) Length   289 a.a.
NCBI ID   WP_004729087.1    Uniprot ID   -
Organism   Vibrio furnissii strain 104486766     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2782788..2793657
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NIN90_RS12860 nadC 2783153..2784040 (+) 888 WP_055466518.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NIN90_RS12865 - 2784287..2784736 (+) 450 WP_055466517.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  NIN90_RS12870 pilB 2784743..2786431 (+) 1689 WP_232658179.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NIN90_RS12875 pilC 2786510..2787736 (+) 1227 WP_055466515.1 type II secretion system F family protein Machinery gene
  NIN90_RS12880 pilD 2787788..2788657 (+) 870 WP_004729087.1 A24 family peptidase Machinery gene
  NIN90_RS12885 coaE 2788660..2789268 (+) 609 WP_014204457.1 dephospho-CoA kinase -
  NIN90_RS12890 zapD 2789301..2790041 (+) 741 WP_004729090.1 cell division protein ZapD -
  NIN90_RS12895 yacG 2790099..2790296 (+) 198 WP_004729092.1 DNA gyrase inhibitor YacG -
  NIN90_RS12900 parC 2790389..2792662 (-) 2274 WP_232658180.1 DNA topoisomerase IV subunit A -

Sequence

Protein


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

>NTDB_id=705081 NIN90_RS12880 WP_004729087.1 2787788..2788657(+) (pilD) [Vibrio furnissii strain 104486766]
MDIFTFYPWLFPTLATLLGLIIGSFLNVVIYRLPKIMEREWRQDCAESFPEYHIEPPQGVLTLSTPRSTCPHCDTPIRII
DNIPVLSWLLLRGKCSQCHAPISARYPLIESFTALCSLAIALQFGFSWFAVALLFFSYVLIAATFIDFDTMLLPDQLTLP
LMWGGIALALAGISPITLHDAVIGAMAGYLALWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPIIILMSSVVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSALYGQAIVGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=705081 NIN90_RS12880 WP_004729087.1 2787788..2788657(+) (pilD) [Vibrio furnissii strain 104486766]
ATGGACATTTTTACTTTCTATCCCTGGCTGTTTCCCACGCTGGCCACCTTGCTGGGTCTGATCATCGGCAGTTTTCTCAA
TGTGGTGATCTATCGCTTGCCGAAAATCATGGAGCGCGAGTGGCGTCAAGACTGTGCCGAGTCCTTTCCGGAATACCACA
TTGAACCGCCCCAAGGTGTGTTAACGCTCAGCACGCCCCGTTCCACCTGCCCACATTGTGATACACCGATTCGTATCATC
GACAATATTCCGGTACTGAGCTGGCTGCTACTGCGCGGCAAGTGCTCGCAGTGCCACGCGCCCATCAGCGCTCGCTACCC
ATTGATCGAATCGTTTACGGCGCTGTGCAGTTTGGCGATTGCTTTGCAGTTTGGTTTTAGCTGGTTTGCGGTGGCTTTGC
TGTTTTTCAGTTATGTGCTGATTGCGGCAACCTTCATCGACTTCGACACCATGCTGCTGCCTGACCAACTGACGCTACCG
TTGATGTGGGGCGGTATCGCACTCGCGCTAGCGGGCATCAGTCCAATCACGTTGCACGATGCCGTGATCGGCGCGATGGC
GGGGTATCTGGCGCTGTGGTCCGTCTACTGGCTGTTTAAACTGCTCACTGGCAAGGAAGGCATGGGGTACGGTGACTTTA
AGTTGTTGGCCGCGCTGGGCGCTTGGCTCGGATGGCAACAACTGCCGATCATCATTTTGATGTCTTCGGTGGTCGGCCTC
GTGTTTGGTCTGATTCAACTGCGCCTGCAAAAACGCGGCATAGATAAAGCCTTCCCGTTTGGCCCTTATCTGGCGATTGC
GGGCTGGCTGTCAGCGCTATACGGTCAGGCGATCGTTGGTTGGTATTTTCATTCCGTATTAGGATTTTGA

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