Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NI390_RS12165 Genome accession   NZ_CP099915
Coordinates   2600176..2601045 (+) Length   289 a.a.
NCBI ID   WP_222763976.1    Uniprot ID   -
Organism   Vibrio fluvialis strain Isc7A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2595176..2606045
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NI390_RS12145 (NI390_12140) nadC 2595628..2596515 (+) 888 WP_308413212.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NI390_RS12150 (NI390_12145) pilA 2596747..2597166 (+) 420 WP_222763982.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  NI390_RS12155 (NI390_12150) pilB 2597245..2598862 (+) 1618 Protein_2312 type IV-A pilus assembly ATPase PilB -
  NI390_RS12160 (NI390_12155) pilC 2598898..2600124 (+) 1227 WP_222763978.1 type II secretion system F family protein Machinery gene
  NI390_RS12165 (NI390_12160) pilD 2600176..2601045 (+) 870 WP_222763976.1 A24 family peptidase Machinery gene
  NI390_RS12170 (NI390_12165) coaE 2601048..2601656 (+) 609 WP_222763974.1 dephospho-CoA kinase -
  NI390_RS12175 (NI390_12170) zapD 2601689..2602429 (+) 741 WP_222763972.1 cell division protein ZapD -
  NI390_RS12180 (NI390_12175) yacG 2602484..2602681 (+) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  NI390_RS12185 (NI390_12180) parC 2602732..2605005 (-) 2274 WP_047459105.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32264.31 Da        Isoelectric Point: 6.4655

>NTDB_id=702494 NI390_RS12165 WP_222763976.1 2600176..2601045(+) (pilD) [Vibrio fluvialis strain Isc7A]
MDIFNFYPWLFPTLATVLGLIIGSFLNVVIYRLPKIMEREWRQECAESFPEYHIEPPQGILTLSTPRSTCPHCDTPIRVI
DNIPVLSWLLLRGKCSNCQGSISARYPLIELLTASCSLLIALQFGFSWFAVAMLFFTYTLIAATFIDFDTMLLPDQLTLP
LLWAGIALALAGISPISLQDAVIGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLLIIILMSSLVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSLLFGHDIAGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=702494 NI390_RS12165 WP_222763976.1 2600176..2601045(+) (pilD) [Vibrio fluvialis strain Isc7A]
ATGGACATTTTTAATTTTTACCCCTGGCTGTTTCCTACGCTGGCGACAGTGCTGGGGTTAATTATCGGCAGTTTCCTCAA
TGTGGTGATTTATCGCCTGCCGAAAATCATGGAGCGCGAGTGGCGTCAGGAGTGTGCGGAGTCCTTTCCCGAGTATCATA
TTGAACCGCCTCAGGGCATTTTAACGCTGAGCACGCCACGTTCCACCTGCCCGCATTGCGATACTCCGATCCGGGTTATC
GACAACATTCCGGTACTGAGCTGGCTGTTGCTGCGTGGTAAATGCTCGAATTGTCAGGGCTCTATCAGCGCGCGTTATCC
ACTGATTGAACTGCTGACGGCTTCATGCAGCCTCTTGATTGCGCTGCAATTTGGTTTTAGCTGGTTTGCCGTTGCCATGC
TGTTCTTTACCTATACGCTGATTGCGGCAACCTTCATTGATTTCGATACGATGCTGCTGCCGGATCAGCTTACTCTGCCC
CTACTCTGGGCTGGTATTGCACTGGCATTGGCGGGCATCAGCCCGATTTCGCTACAAGATGCGGTGATTGGTGCGATAGC
GGGTTATCTGTCGTTGTGGTCGGTGTACTGGCTGTTTAAGCTACTGACAGGCAAAGAAGGCATGGGCTATGGCGACTTTA
AGCTGTTAGCGGCTCTCGGTGCCTGGCTGGGATGGCAGCAACTACTGATCATCATTCTGATGTCATCTCTGGTTGGACTG
GTGTTCGGCCTCATTCAACTGCGTCTGCAAAAGCGCGGCATTGATAAAGCATTTCCCTTCGGGCCTTATCTGGCGATTGC
AGGCTGGTTATCCCTGCTGTTTGGTCATGACATTGCGGGTTGGTATTTTCATTCGGTATTAGGATTCTGA

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

78.125

99.654

0.779
  pilD Vibrio campbellii strain DS40M4

77.431

99.654

0.772
  pilD Acinetobacter baumannii D1279779

52.555

94.81

0.498
  pilD Acinetobacter nosocomialis M2

52.19

94.81

0.495
  pilD Neisseria gonorrhoeae MS11

50.558

93.08

0.471