Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KC397_RS12605 Genome accession   NZ_CP073273
Coordinates   2679932..2680801 (+) Length   289 a.a.
NCBI ID   WP_212570745.1    Uniprot ID   -
Organism   Vibrio fluvialis strain 19-VB00936     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2674932..2685801
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KC397_RS12585 (KC397_12585) nadC 2675374..2676261 (+) 888 WP_212570737.1 carboxylating nicotinate-nucleotide diphosphorylase -
  KC397_RS12590 (KC397_12590) - 2676492..2676923 (+) 432 WP_212570739.1 pilin -
  KC397_RS12595 (KC397_12595) pilB 2676930..2678618 (+) 1689 WP_212570741.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KC397_RS12600 (KC397_12600) pilC 2678654..2679880 (+) 1227 WP_212570743.1 type II secretion system F family protein Machinery gene
  KC397_RS12605 (KC397_12605) pilD 2679932..2680801 (+) 870 WP_212570745.1 A24 family peptidase Machinery gene
  KC397_RS12610 (KC397_12610) coaE 2680804..2681412 (+) 609 WP_020332197.1 dephospho-CoA kinase -
  KC397_RS12615 (KC397_12615) zapD 2681445..2682185 (+) 741 WP_020332196.1 cell division protein ZapD -
  KC397_RS12620 (KC397_12620) yacG 2682240..2682437 (+) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  KC397_RS12625 (KC397_12625) parC 2682488..2684761 (-) 2274 WP_212570746.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32330.42 Da        Isoelectric Point: 6.4655

>NTDB_id=558729 KC397_RS12605 WP_212570745.1 2679932..2680801(+) (pilD) [Vibrio fluvialis strain 19-VB00936]
MDIFNFYPWLFPTLATVLGLIIGSFLNVVIYRLPKIMEREWRQECAESFPEYHIEPPQGILTLSTPRSTCPHCDTPIRVI
DNIPVLSWLLLRGKCSNCQVPISARYPLIELLTASCSLLIALQFGFSWFAVAMLFFTYTLIAATFIDFDTMLLPDQLTLP
LLWAGIALALAGISPISLQDAVIGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGTWLGWQQLPIIILMSSLVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSLLFGHDIAGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=558729 KC397_RS12605 WP_212570745.1 2679932..2680801(+) (pilD) [Vibrio fluvialis strain 19-VB00936]
ATGGACATTTTTAATTTTTACCCCTGGCTGTTTCCTACGCTGGCGACAGTGCTGGGGTTAATTATCGGCAGTTTCCTCAA
TGTGGTGATTTATCGCCTGCCGAAAATCATGGAGCGCGAGTGGCGTCAGGAGTGTGCGGAATCCTTTCCCGAGTATCATA
TTGAACCGCCTCAGGGCATTTTAACGCTGAGCACGCCACGTTCCACCTGCCCGCATTGCGATACTCCGATCCGGGTTATC
GACAACATTCCGGTACTGAGCTGGCTTTTGCTGCGTGGTAAATGCTCGAATTGTCAGGTCCCTATCAGCGCGCGTTATCC
ACTGATTGAACTGCTGACGGCTTCATGCAGCCTCTTGATTGCGCTGCAATTTGGTTTTAGCTGGTTTGCCGTTGCCATGC
TGTTCTTTACCTATACGCTGATTGCGGCAACCTTCATTGATTTCGATACGATGCTGCTGCCGGATCAGCTTACTCTGCCC
CTACTCTGGGCTGGTATTGCGCTGGCGTTGGCGGGCATCAGCCCGATTTCGCTACAAGATGCGGTGATTGGTGCGATAGC
GGGTTATCTGTCGTTATGGTCGGTGTACTGGCTGTTTAAGCTACTGACAGGCAAAGAAGGCATGGGCTATGGCGACTTTA
AGCTGTTAGCGGCTCTCGGTACCTGGCTGGGATGGCAGCAACTACCGATCATCATTCTGATGTCATCTCTGGTTGGACTG
GTGTTCGGCCTCATTCAACTGCGTCTGCAAAAGCGCGGTATTGATAAAGCATTTCCGTTCGGACCTTATCTGGCGATTGC
AGGCTGGCTGTCTCTGCTGTTTGGTCATGACATTGCGGGTTGGTATTTTCATTCGGTATTAGGATTCTGA

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

78.472

99.654

0.782
  pilD Vibrio campbellii strain DS40M4

77.778

99.654

0.775
  pilD Acinetobacter baumannii D1279779

52.92

94.81

0.502
  pilD Acinetobacter nosocomialis M2

52.555

94.81

0.498
  pilD Neisseria gonorrhoeae MS11

50.558

93.08

0.471