Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VCASEI_RS11105 Genome accession   NZ_AP018680
Coordinates   2382274..2383167 (+) Length   297 a.a.
NCBI ID   WP_086961931.1    Uniprot ID   -
Organism   Vibrio casei strain DSM 22364     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2377274..2388167
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VCASEI_RS11085 nadC 2377534..2378454 (+) 921 WP_086961924.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VCASEI_RS19775 - 2378789..2379223 (+) 435 WP_086961926.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  VCASEI_RS11095 pilB 2379232..2380920 (+) 1689 WP_086961927.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VCASEI_RS11100 pilC 2380999..2382231 (+) 1233 WP_089110775.1 type II secretion system F family protein Machinery gene
  VCASEI_RS11105 pilD 2382274..2383167 (+) 894 WP_086961931.1 A24 family peptidase Machinery gene
  VCASEI_RS11110 coaE 2383179..2383796 (+) 618 WP_086961933.1 dephospho-CoA kinase -
  VCASEI_RS11115 zapD 2383837..2384574 (+) 738 WP_086961935.1 cell division protein ZapD -
  VCASEI_RS11120 yacG 2384672..2384875 (+) 204 WP_086961936.1 DNA gyrase inhibitor YacG -
  VCASEI_RS11125 mutT 2384945..2385346 (-) 402 WP_086961938.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 297 a.a.        Molecular weight: 33689.28 Da        Isoelectric Point: 7.4729

>NTDB_id=70333 VCASEI_RS11105 WP_086961931.1 2382274..2383167(+) (pilD) [Vibrio casei strain DSM 22364]
MIIFDYYPSLFPILAGIFGLLIGSFLNVVIHRLPIMMEREWKKDCIECFPQLQRDPDVKKELENLNKPFNLNTPRSRCPK
CNTQIRAIDNIPVMSWLLLKGKCHKCDNPISARYPAIELLTALLCVVIGLFFPADWYGFALLFFTFTLVSATFIDLDTML
LPDQLTLPLMWGGLVLSLFQISPVSLYDAVIGAIAGYLFLWTIFWAFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPLII
LLSSVVGLVFGLIQLRLQNKGIEKAFPFGPYLAIAGWFCLIWGNDLISWYLNNMLSM

Nucleotide


Download         Length: 894 bp        

>NTDB_id=70333 VCASEI_RS11105 WP_086961931.1 2382274..2383167(+) (pilD) [Vibrio casei strain DSM 22364]
ATGATTATTTTTGACTATTATCCTTCTCTTTTTCCTATTCTAGCTGGGATATTTGGTTTACTTATCGGCAGCTTTTTAAA
TGTTGTCATTCATCGTTTACCCATCATGATGGAAAGAGAATGGAAAAAAGACTGCATTGAATGCTTTCCCCAACTTCAAC
GTGATCCTGACGTTAAAAAAGAACTCGAGAACCTCAATAAACCTTTTAATTTAAATACCCCTCGCTCTCGTTGTCCAAAA
TGCAACACACAAATTCGTGCCATTGACAATATTCCAGTGATGAGCTGGCTTCTTCTCAAAGGAAAGTGTCATAAGTGCGA
CAATCCAATCAGTGCCCGTTATCCCGCAATTGAATTACTGACAGCCCTATTATGCGTAGTCATTGGTCTGTTTTTCCCGG
CGGATTGGTATGGTTTTGCCTTATTGTTTTTCACTTTTACTTTGGTCTCTGCCACCTTTATCGATCTTGATACGATGTTA
TTACCCGACCAGCTCACCTTACCATTGATGTGGGGCGGACTGGTGCTTTCCCTATTTCAAATCAGCCCCGTATCTTTATA
CGATGCAGTTATTGGTGCCATCGCTGGCTATTTATTTTTATGGACCATTTTTTGGGCATTTAAATTATTAACAGGAAAAG
AAGGGATGGGTTATGGTGATTTCAAATTACTCGCCGCATTAGGGGCTTGGCTAGGGTGGCAACAATTACCTTTAATCATA
TTACTCTCTTCTGTTGTCGGTTTAGTCTTTGGATTGATACAACTTCGATTACAAAACAAAGGGATTGAAAAAGCATTTCC
ATTTGGTCCATACCTCGCCATTGCTGGATGGTTTTGTTTAATCTGGGGCAATGATTTAATCTCTTGGTACCTTAACAATA
TGCTAAGCATGTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(143-252)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-130)


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 campbellii strain DS40M4

64.31

100

0.643
  pilD Vibrio cholerae strain A1552

64.846

98.653

0.64
  pilD Acinetobacter baumannii D1279779

48.754

94.613

0.461
  pilD Acinetobacter nosocomialis M2

47.687

94.613

0.451
  pilD Neisseria gonorrhoeae MS11

46.29

95.286

0.441

Multiple sequence alignment