Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LT090_RS02825 Genome accession   NZ_CP017689
Coordinates   631897..632790 (-) Length   297 a.a.
NCBI ID   WP_068544844.1    Uniprot ID   -
Organism   Thalassotalea crassostreae strain LPB0090     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 626897..637790
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LT090_RS02795 mutT 626985..627380 (+) 396 WP_068544852.1 8-oxo-dGTP diphosphatase MutT -
  LT090_RS02800 - 627749..628627 (+) 879 WP_068545046.1 LysR family transcriptional regulator -
  LT090_RS02805 - 628857..629321 (+) 465 WP_068544850.1 hypothetical protein -
  LT090_RS02810 yacG 629595..629831 (-) 237 WP_068544848.1 DNA gyrase inhibitor YacG -
  LT090_RS02815 - 629979..630725 (-) 747 WP_068544846.1 cell division protein ZapD -
  LT090_RS02820 coaE 631099..631707 (-) 609 WP_068545045.1 dephospho-CoA kinase -
  LT090_RS02825 pilD 631897..632790 (-) 894 WP_068544844.1 prepilin peptidase Machinery gene
  LT090_RS02830 pilC 632968..634221 (-) 1254 WP_082897042.1 type II secretion system F family protein Machinery gene
  LT090_RS02835 pilB 634304..636007 (-) 1704 WP_415918826.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LT090_RS17240 - 636120..636509 (-) 390 WP_269466066.1 pilin -

Sequence

Protein


Download         Length: 297 a.a.        Molecular weight: 32855.26 Da        Isoelectric Point: 6.2373

>NTDB_id=201801 LT090_RS02825 WP_068544844.1 631897..632790(-) (pilD) [Thalassotalea crassostreae strain LPB0090]
MSDVIALFEQSPAIFYITITILGLIVGSFLNVVIFRLPKMIEAEWRCECREFLADELKPTKETENKSVEEVVTLSKPAST
CPKCGHKIKAIENIPVISWLVLRGKCSSCSNPISARYPIIETVTGVLSLVIGMHYGVTWATVFMLALTWALITLTMIDFD
KMILPDQITLPLVWIGLLLNLNGVFVGLEQAVIGAVVGYMSLWSIFWLFKLITGKEGMGYGDFKLFAVFGAWFGWEVLPL
LILMASVVGAIIGIGLMVFRNHEGSKPIPFGPYLAIAGWITAIWGSGIWAWYLGLIS

Nucleotide


Download         Length: 894 bp        

>NTDB_id=201801 LT090_RS02825 WP_068544844.1 631897..632790(-) (pilD) [Thalassotalea crassostreae strain LPB0090]
TTGTCTGATGTAATCGCTCTTTTTGAGCAATCCCCTGCTATTTTCTATATCACTATTACGATTTTAGGTTTAATCGTTGG
TAGCTTTTTAAATGTAGTAATTTTCCGTTTACCGAAAATGATTGAAGCAGAATGGCGCTGCGAATGTCGTGAATTTTTAG
CTGACGAATTAAAACCAACAAAAGAAACCGAAAATAAAAGTGTAGAAGAAGTGGTTACGCTTTCGAAACCTGCATCTACC
TGCCCTAAGTGTGGACATAAAATTAAAGCGATTGAGAATATCCCAGTGATCTCTTGGTTAGTGTTACGTGGTAAATGTTC
GTCTTGTTCGAACCCAATATCTGCGCGCTACCCAATTATTGAAACAGTAACTGGTGTATTGTCGTTAGTGATTGGTATGC
ATTATGGTGTTACCTGGGCAACGGTATTCATGCTTGCGTTAACTTGGGCATTAATCACCTTAACCATGATTGATTTTGAT
AAAATGATTTTGCCAGATCAAATCACCCTACCACTCGTTTGGATTGGTTTATTGCTTAATTTAAACGGTGTATTTGTCGG
CCTTGAGCAAGCCGTTATCGGCGCAGTTGTCGGTTATATGAGTTTGTGGTCAATCTTTTGGTTATTTAAGCTTATCACCG
GCAAAGAAGGCATGGGTTATGGTGATTTTAAACTCTTTGCCGTATTCGGCGCTTGGTTTGGCTGGGAAGTATTACCATTA
CTGATTTTAATGGCGTCCGTGGTGGGTGCTATTATTGGTATTGGTTTAATGGTATTTCGTAACCATGAAGGTTCAAAGCC
AATCCCATTTGGTCCTTATTTAGCAATTGCTGGTTGGATCACAGCGATATGGGGTAGCGGTATTTGGGCTTGGTACTTGG
GTTTGATTTCTTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(146-254)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-134)


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

52.921

97.98

0.519
  pilD Vibrio cholerae strain A1552

52.069

97.643

0.508
  pilD Acinetobacter baumannii D1279779

50.68

98.99

0.502
  pilD Acinetobacter nosocomialis M2

50.34

98.99

0.498
  pilD Neisseria gonorrhoeae MS11

48.148

90.909

0.438

Multiple sequence alignment