Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPX86_RS10480 Genome accession   NZ_CP046793
Coordinates   2326201..2327067 (-) Length   288 a.a.
NCBI ID   WP_158144688.1    Uniprot ID   -
Organism   Vibrio metschnikovii strain 9502-00     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2321201..2332067
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPX86_RS10460 parC 2322206..2324479 (+) 2274 WP_158138887.1 DNA topoisomerase IV subunit A -
  GPX86_RS10465 yacG 2324576..2324773 (-) 198 WP_158138886.1 DNA gyrase inhibitor YacG -
  GPX86_RS10470 zapD 2324815..2325555 (-) 741 WP_004394266.1 cell division protein ZapD -
  GPX86_RS10475 coaE 2325587..2326195 (-) 609 WP_158138885.1 dephospho-CoA kinase -
  GPX86_RS10480 pilD 2326201..2327067 (-) 867 WP_158144688.1 A24 family peptidase Machinery gene
  GPX86_RS10485 pilC 2327243..2328469 (-) 1227 WP_154170154.1 type II secretion system F family protein Machinery gene
  GPX86_RS10490 pilB 2328488..2330176 (-) 1689 WP_158144689.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPX86_RS10495 - 2330191..2330610 (-) 420 WP_158144690.1 pilin -
  GPX86_RS10500 nadC 2330893..2331783 (-) 891 WP_158144691.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31921.22 Da        Isoelectric Point: 7.8853

>NTDB_id=407883 GPX86_RS10480 WP_158144688.1 2326201..2327067(-) (pilD) [Vibrio metschnikovii strain 9502-00]
MDIFYYIPWLFPALATLLGLIIGSFLNVVIYRLPTMMQREWRQECADAFPDYGITPPDGKLTLSTPRSTCPKCHTPLRIR
DNIPLISWLCLQGKCAHCSAPISARYPAIELLTAVSSLIIALHFGFSPYSVALLLFTYMLIAATFIDLDSMLLPDQLTLP
LLWAGISLALLNISPLSLNDAVIGAIAGYLCLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQLLPLIVLLSSLVGL
VFGLIQLRLQKQGINKAFPFGPYLAIAGWLAMLWGDKLIAWYLHSLVG

Nucleotide


Download         Length: 867 bp        

>NTDB_id=407883 GPX86_RS10480 WP_158144688.1 2326201..2327067(-) (pilD) [Vibrio metschnikovii strain 9502-00]
ATGGACATTTTTTACTATATACCTTGGCTATTTCCCGCCTTAGCAACGCTATTAGGGTTAATCATTGGTAGTTTTTTGAA
TGTGGTGATTTACCGCTTACCAACGATGATGCAACGAGAATGGCGTCAAGAATGTGCCGATGCTTTTCCTGACTATGGCA
TCACACCCCCTGATGGCAAGCTCACGCTCAGTACACCTCGTTCAACTTGCCCTAAATGTCATACGCCTTTGCGCATAAGA
GATAATATTCCACTTATCAGTTGGCTCTGCTTGCAAGGCAAATGCGCGCACTGTTCAGCGCCGATCAGCGCTCGCTATCC
GGCGATTGAGCTATTAACTGCCGTGAGCAGTTTGATCATTGCTCTGCACTTTGGCTTTAGCCCTTATAGTGTGGCACTGC
TGCTATTTACTTATATGTTAATTGCCGCCACCTTCATTGATTTGGATAGTATGTTGCTGCCAGACCAATTGACTCTGCCT
TTACTGTGGGCAGGGATCAGCCTAGCACTATTGAATATTAGCCCACTCTCACTCAATGACGCCGTGATTGGAGCGATAGC
AGGCTATCTTTGCTTATGGTCGATTTATTGGCTATTTAAACTACTGACCGGTAAAGAAGGTATGGGCTATGGTGACTTTA
AGTTGCTTGCCGCGCTCGGAGCTTGGTTAGGTTGGCAATTATTACCGTTAATCGTATTACTCTCTTCACTGGTCGGTTTG
GTGTTTGGATTGATTCAATTGCGTTTGCAAAAACAAGGCATTAATAAAGCTTTCCCGTTTGGTCCTTACTTGGCGATTGC
TGGTTGGCTAGCGATGTTGTGGGGCGATAAACTGATCGCTTGGTATCTACATTCATTAGTAGGATAA

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

76.389

100

0.764
  pilD Vibrio campbellii strain DS40M4

71.528

100

0.715
  pilD Acinetobacter nosocomialis M2

56.667

93.75

0.531
  pilD Acinetobacter baumannii D1279779

55.185

93.75

0.517
  pilD Neisseria gonorrhoeae MS11

45.105

99.306

0.448

Multiple sequence alignment