Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VRUMOI_RS10550 Genome accession   NZ_AP018685
Coordinates   2316838..2317731 (+) Length   297 a.a.
NCBI ID   WP_089138443.1    Uniprot ID   -
Organism   Vibrio rumoiensis strain FERM P-14531     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2311838..2322731
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VRUMOI_RS10530 pilA 2312921..2313355 (+) 435 WP_089138447.1 pilin Machinery gene
  VRUMOI_RS19600 - 2313371..2313766 (+) 396 WP_089138446.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  VRUMOI_RS10540 pilB 2313806..2315494 (+) 1689 WP_089138445.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VRUMOI_RS10545 pilC 2315563..2316795 (+) 1233 WP_089138444.1 type II secretion system F family protein Machinery gene
  VRUMOI_RS10550 pilD 2316838..2317731 (+) 894 WP_089138443.1 A24 family peptidase Machinery gene
  VRUMOI_RS10555 coaE 2317735..2318358 (+) 624 WP_089138442.1 dephospho-CoA kinase -
  VRUMOI_RS10560 zapD 2318404..2319135 (+) 732 WP_089138441.1 cell division protein ZapD -
  VRUMOI_RS10565 yacG 2319180..2319383 (+) 204 WP_089138440.1 DNA gyrase inhibitor YacG -
  VRUMOI_RS10570 mutT 2319459..2319875 (-) 417 WP_089138439.1 8-oxo-dGTP diphosphatase MutT -
  VRUMOI_RS10575 secA 2319949..2322678 (-) 2730 WP_089138438.1 preprotein translocase subunit SecA -

Sequence

Protein


Download         Length: 297 a.a.        Molecular weight: 33523.20 Da        Isoelectric Point: 7.8263

>NTDB_id=70376 VRUMOI_RS10550 WP_089138443.1 2316838..2317731(+) (pilD) [Vibrio rumoiensis strain FERM P-14531]
MVIFDYYPALFPIAAGIFGLLIGSFLNVVIHRLPIMMEREWKQECIEFFPQLKKDPKIKQELTDLNKPFNLNVPRSRCPK
CDTQIRAVDNIPVISWLMLKGKCHKCANPISFRYPAIELLTAILCVVIGIHFTADWYGLALLFFTFTLVSATFIDLDTML
LPDQLTLPLMWAGLALSLFEISPVSLQDAVIGAMAGYLCLWSIFWAFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPLLI
LLSSVIGLIFGIIQLRLQKKGIEKAFPFGPYLAIAGWFCLIWGNDLTSWYLTNMLGM

Nucleotide


Download         Length: 894 bp        

>NTDB_id=70376 VRUMOI_RS10550 WP_089138443.1 2316838..2317731(+) (pilD) [Vibrio rumoiensis strain FERM P-14531]
ATGGTGATCTTTGATTATTACCCAGCTCTCTTTCCAATTGCAGCTGGTATCTTTGGCTTATTAATTGGCAGCTTTTTAAA
TGTCGTGATCCATCGACTACCTATCATGATGGAGCGAGAGTGGAAGCAAGAGTGCATCGAGTTTTTCCCGCAACTGAAAA
AAGATCCAAAAATCAAACAAGAGCTTACCGATCTCAATAAGCCATTTAATCTCAATGTGCCACGTTCACGTTGCCCAAAA
TGCGATACGCAAATTCGTGCGGTAGATAATATCCCAGTGATAAGTTGGTTAATGCTCAAAGGCAAGTGCCACAAATGCGC
TAACCCAATCAGCTTTCGCTATCCAGCTATCGAACTCCTAACCGCTATTTTATGTGTGGTGATCGGTATTCATTTTACTG
CCGATTGGTATGGCCTCGCCTTACTGTTTTTCACTTTTACGCTAGTGTCAGCTACCTTTATCGATCTAGATACGATGTTA
CTACCCGATCAATTGACCCTGCCTTTAATGTGGGCAGGCTTGGCTTTGTCTTTGTTTGAGATTAGCCCAGTATCACTACA
AGATGCTGTCATTGGCGCAATGGCGGGTTACCTATGTCTATGGTCCATCTTCTGGGCGTTTAAATTACTTACTGGCAAAG
AAGGTATGGGTTACGGTGACTTTAAACTACTGGCTGCGCTCGGAGCTTGGCTCGGTTGGCAACAACTCCCTTTACTCATA
TTGCTATCTTCTGTCATCGGGTTAATTTTTGGTATTATCCAATTGCGTTTACAAAAGAAAGGGATAGAGAAAGCCTTCCC
ATTTGGTCCTTACCTCGCGATTGCTGGTTGGTTTTGTCTAATCTGGGGTAATGACTTAACCTCTTGGTATCTCACCAATA
TGCTAGGAATGTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-132)

Type IV leader peptidase family (Peptidase_A24)

(143-252)


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

68.35

100

0.684
  pilD Vibrio cholerae strain A1552

63.514

99.663

0.633
  pilD Acinetobacter baumannii D1279779

50.896

93.939

0.478
  pilD Acinetobacter nosocomialis M2

50.538

93.939

0.475
  pilD Neisseria gonorrhoeae MS11

47.405

97.306

0.461

Multiple sequence alignment