Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   J4N42_RS11940 Genome accession   NZ_CP071859
Coordinates   2695167..2696036 (+) Length   289 a.a.
NCBI ID   WP_252028231.1    Uniprot ID   -
Organism   Vibrio sp. SCSIO 43135     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2690167..2701036
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J4N42_RS11920 (J4N42_11910) nadC 2690590..2691492 (+) 903 WP_252028226.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J4N42_RS11925 (J4N42_11915) - 2691747..2692175 (+) 429 WP_252028227.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  J4N42_RS11930 (J4N42_11920) pilB 2692186..2693871 (+) 1686 WP_252028229.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J4N42_RS11935 (J4N42_11925) pilC 2693895..2695121 (+) 1227 WP_252028230.1 type II secretion system F family protein Machinery gene
  J4N42_RS11940 (J4N42_11930) pilD 2695167..2696036 (+) 870 WP_252028231.1 A24 family peptidase Machinery gene
  J4N42_RS11945 (J4N42_11935) coaE 2696038..2696652 (+) 615 WP_252028232.1 dephospho-CoA kinase -
  J4N42_RS11950 (J4N42_11940) zapD 2696679..2697419 (+) 741 WP_252028233.1 cell division protein ZapD -
  J4N42_RS11955 (J4N42_11945) yacG 2697499..2697696 (+) 198 WP_252028234.1 DNA gyrase inhibitor YacG -
  J4N42_RS11960 (J4N42_11950) eno 2698204..2699502 (-) 1299 WP_252028235.1 phosphopyruvate hydratase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32536.85 Da        Isoelectric Point: 6.8217

>NTDB_id=548515 J4N42_RS11940 WP_252028231.1 2695167..2696036(+) (pilD) [Vibrio sp. SCSIO 43135]
MEAFDYYPWLFPTLATLFGLIIGSFLNVVIHRLPIIMEREWRKECSESFPEYKISPPEGEYTLSLPRSTCPKCKTQLRLI
DNIPVLSWLMLKGKCHQCSQPISVRYPLVELLAASMSFIVAFHFGFSYFSVALLFFTFILIAATFIDLDTMLLPDQLTLP
LVWFGIALSLFGVSPVSLEDSVIGAMAGYLCLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQHLPLIILLSSLVGL
CFGLIQLRLQKKGIDKAFPFGPYLAIAGWISLIFGEQIMAWYLGSVMGI

Nucleotide


Download         Length: 870 bp        

>NTDB_id=548515 J4N42_RS11940 WP_252028231.1 2695167..2696036(+) (pilD) [Vibrio sp. SCSIO 43135]
ATGGAAGCATTTGACTACTACCCCTGGCTTTTCCCTACACTTGCAACCCTATTTGGGCTTATCATTGGCAGCTTCCTTAA
TGTAGTGATCCATCGCTTACCGATTATTATGGAACGAGAGTGGCGTAAAGAATGCTCTGAAAGCTTCCCTGAATATAAAA
TTTCCCCACCCGAAGGGGAATATACTCTGAGCCTCCCTCGCTCGACTTGCCCAAAATGCAAGACTCAACTGAGATTAATC
GACAATATTCCTGTCTTAAGTTGGCTAATGCTAAAAGGCAAATGCCATCAATGCAGCCAACCCATCAGCGTCCGTTACCC
TTTAGTTGAACTACTTGCTGCGTCGATGAGCTTCATCGTCGCTTTCCACTTTGGTTTTAGCTATTTCTCAGTCGCGCTTC
TGTTTTTCACTTTTATTTTGATTGCTGCGACCTTTATCGACCTCGATACCATGCTGCTTCCCGACCAACTCACACTGCCA
CTCGTTTGGTTTGGCATCGCTTTATCGCTCTTCGGGGTAAGCCCTGTTTCATTAGAGGATTCCGTCATTGGTGCCATGGC
TGGGTATTTGTGTTTATGGAGTGTCTACTGGCTATTTAAGTTGCTCACAGGGAAGGAAGGTATGGGCTACGGTGACTTTA
AGCTGTTAGCAGCACTCGGAGCGTGGCTTGGCTGGCAACACCTACCTTTGATTATCTTACTCTCTTCCCTAGTTGGTCTG
TGCTTTGGGCTAATTCAGCTACGCTTACAAAAGAAAGGGATAGATAAAGCGTTTCCGTTCGGCCCCTACTTAGCTATTGC
GGGGTGGATAAGCTTGATTTTCGGCGAACAAATCATGGCTTGGTACTTAGGCTCGGTAATGGGAATTTAA

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 campbellii strain DS40M4

76.817

100

0.768
  pilD Vibrio cholerae strain A1552

73.958

99.654

0.737
  pilD Acinetobacter baumannii D1279779

51.471

94.118

0.484
  pilD Acinetobacter nosocomialis M2

51.471

94.118

0.484
  pilD Neisseria gonorrhoeae MS11

46.269

92.734

0.429