Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   OOK74_RS09355 Genome accession   NZ_CP113241
Coordinates   2051865..2052737 (+) Length   290 a.a.
NCBI ID   WP_278182673.1    Uniprot ID   -
Organism   Vibrio sp. gvc     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2046865..2057737
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OOK74_RS09335 nadC 2047286..2048191 (+) 906 WP_278182669.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OOK74_RS09340 pilA 2048396..2048836 (+) 441 WP_278182670.1 pilin Machinery gene
  OOK74_RS09345 pilB 2048843..2050531 (+) 1689 WP_278182671.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OOK74_RS09350 pilC 2050584..2051810 (+) 1227 WP_278182672.1 type II secretion system F family protein Machinery gene
  OOK74_RS09355 pilD 2051865..2052737 (+) 873 WP_278182673.1 A24 family peptidase Machinery gene
  OOK74_RS09360 coaE 2052734..2053342 (+) 609 WP_278182674.1 dephospho-CoA kinase -
  OOK74_RS09365 zapD 2053374..2054114 (+) 741 WP_274722840.1 cell division protein ZapD -
  OOK74_RS09370 yacG 2054199..2054396 (+) 198 WP_277206628.1 DNA gyrase inhibitor YacG -
  OOK74_RS09375 parC 2054503..2056785 (-) 2283 WP_278182675.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32023.15 Da        Isoelectric Point: 5.7329

>NTDB_id=761110 OOK74_RS09355 WP_278182673.1 2051865..2052737(+) (pilD) [Vibrio sp. gvc]
MELFDYYPWLFPLLASLFGLIIGSFLNVLIYRLPKMMEREWRAECAASFPEYAISPPDGVLTLSVPRSTCPHCNTPIRII
DNIPLLSWLWLRGKCSHCQAAISARYPLIELLSAGISGLIASQFPFGIYAVALLFFSYVLIAATFIDLDTMLLPDQLTLP
LLWAGIALALLGFSPLSLGDAVIGAMAGYLCLWSIYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIVLLSSLVGI
VFGLIQLRLQRQGIDKAFPFGPYLAIAGGLALLYGESIITWYFSTWVGPL

Nucleotide


Download         Length: 873 bp        

>NTDB_id=761110 OOK74_RS09355 WP_278182673.1 2051865..2052737(+) (pilD) [Vibrio sp. gvc]
ATGGAACTGTTTGATTACTACCCGTGGCTATTTCCGCTATTGGCTAGCTTATTTGGCCTGATCATCGGTAGCTTTCTGAA
TGTGCTGATTTACCGCTTACCGAAAATGATGGAACGCGAATGGCGCGCTGAGTGTGCGGCAAGCTTTCCTGAATACGCGA
TTAGCCCGCCAGACGGAGTGCTCACCCTCAGTGTACCGCGCTCCACTTGCCCACACTGCAATACCCCGATTCGAATCATC
GATAATATCCCACTGCTCAGTTGGCTTTGGCTACGCGGTAAGTGCTCGCACTGCCAAGCGGCGATTAGTGCGCGTTATCC
ATTGATTGAGCTGCTGAGCGCCGGGATCAGTGGCCTGATCGCCAGCCAATTTCCGTTTGGTATCTATGCCGTGGCGCTAC
TGTTTTTCAGCTATGTGCTGATTGCAGCAACGTTTATCGACCTCGATACCATGCTGCTGCCCGATCAACTGACCCTACCG
TTACTGTGGGCGGGCATTGCGCTAGCCCTGCTCGGATTTTCTCCTCTATCACTTGGTGATGCGGTGATCGGCGCTATGGC
AGGCTATCTCTGCCTATGGTCAATTTACTGGCTGTTTAAATTACTGACCGGCAAAGAAGGCATGGGCTATGGCGATTTCA
AATTGCTCGCCGCACTCGGTGCTTGGCTTGGCTGGCAGCAGTTGCCAGTAATTGTGCTGCTTTCTTCACTGGTTGGCATC
GTATTTGGCTTAATCCAACTGCGCCTACAACGGCAAGGGATTGATAAAGCTTTCCCATTTGGGCCTTATTTGGCAATCGC
AGGTGGCTTGGCTCTGCTGTACGGTGAGTCGATCATTACGTGGTACTTCTCCACTTGGGTTGGGCCATTATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)


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

83.333

99.31

0.828
  pilD Vibrio campbellii strain DS40M4

73.958

99.31

0.734
  pilD Acinetobacter nosocomialis M2

52.788

92.759

0.49
  pilD Acinetobacter baumannii D1279779

52.416

92.759

0.486
  pilD Neisseria gonorrhoeae MS11

45.455

94.828

0.431