Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NI376_RS02585 Genome accession   NZ_CP099943
Coordinates   564543..565421 (+) Length   292 a.a.
NCBI ID   WP_308374104.1    Uniprot ID   -
Organism   Pseudoalteromonas piscicida strain BM7A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 559543..570421
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NI376_RS02570 (NI376_02565) nadC 561146..561988 (+) 843 WP_308374733.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NI376_RS02575 - 562658..563119 (+) 462 WP_308374103.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  NI376_RS02580 (NI376_02575) pilC 563186..564409 (+) 1224 WP_308374734.1 type II secretion system F family protein Machinery gene
  NI376_RS02585 (NI376_02580) pilD 564543..565421 (+) 879 WP_308374104.1 A24 family peptidase Machinery gene
  NI376_RS02590 (NI376_02585) coaE 565431..566060 (+) 630 WP_308374105.1 dephospho-CoA kinase -
  NI376_RS02595 (NI376_02590) pilB 566156..567832 (+) 1677 WP_222242591.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NI376_RS02600 (NI376_02595) rlmM 568119..569204 (-) 1086 WP_010607344.1 23S rRNA (cytidine(2498)-2'-O)-methyltransferase RlmM -
  NI376_RS02605 (NI376_02600) - 569218..569586 (-) 369 WP_017217933.1 DUF423 domain-containing protein -
  NI376_RS02610 (NI376_02605) - 569579..570217 (-) 639 WP_045989837.1 alpha/beta family hydrolase -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32524.91 Da        Isoelectric Point: 6.2163

>NTDB_id=702754 NI376_RS02585 WP_308374104.1 564543..565421(+) (pilD) [Pseudoalteromonas piscicida strain BM7A]
MQDIINLMQTQLWYWLLTVGLVSLCIGSFLNVVILRLPKMMKQSWQSECRVLLADELPKQTAEAPVFNLIKPSSHCPSCK
TPIKAWQNIPLISWLLLKGKCNHCDASISVRYPLVELTTALLSIWVAWHFGATLEATLYILITWVLVALTVIDIDEMLLP
DQLTLPTLWLVLVASCFGVGIEPNDAIIGAAIGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAIFGALMGWQAILTIVLLS
SLVGAIIGSIQLSVQGRDKATPIPFGPYLAIAGWITLMYGEQLQLWYINLIM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=702754 NI376_RS02585 WP_308374104.1 564543..565421(+) (pilD) [Pseudoalteromonas piscicida strain BM7A]
ATGCAAGATATTATCAACTTGATGCAAACCCAGTTATGGTATTGGTTACTCACCGTCGGACTCGTTAGTCTTTGCATCGG
CAGCTTCCTCAATGTGGTTATTCTTCGTTTACCTAAAATGATGAAGCAGAGCTGGCAATCAGAATGTCGCGTGTTGCTTG
CCGATGAGCTACCTAAACAAACCGCTGAAGCACCCGTGTTTAATTTAATTAAACCAAGCTCTCATTGCCCCAGCTGCAAA
ACACCGATTAAAGCGTGGCAAAACATTCCACTGATCAGCTGGCTATTATTAAAAGGCAAATGCAACCACTGCGACGCGTC
AATCTCTGTACGCTATCCTTTGGTAGAGCTAACAACCGCCCTACTCTCCATATGGGTTGCGTGGCATTTTGGTGCCACTT
TAGAAGCCACTCTGTATATTTTGATTACTTGGGTGTTAGTCGCACTTACGGTTATCGATATCGACGAAATGTTGCTGCCA
GATCAGTTAACGCTACCAACTTTATGGTTAGTACTGGTTGCCAGTTGTTTTGGTGTTGGCATTGAGCCCAATGATGCCAT
TATCGGCGCGGCCATAGGTTATTTGAGTTTATGGAGCGTGTATTGGCTGTTTAAATTACTCACAGGTAAAGAAGGCATGG
GCTATGGCGACTTTAAACTGCTAGCCATCTTTGGTGCATTGATGGGCTGGCAAGCAATCTTAACCATAGTGCTACTTTCA
AGCCTGGTCGGCGCAATCATTGGCAGCATCCAATTAAGTGTTCAAGGCAGAGATAAAGCCACCCCAATCCCATTTGGCCC
TTACTTAGCCATTGCAGGCTGGATCACCCTAATGTACGGCGAGCAGCTGCAGCTGTGGTACATAAACTTAATAATGTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(141-248)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-130)


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 Acinetobacter baumannii D1279779

53.633

98.973

0.531
  pilD Acinetobacter nosocomialis M2

53.633

98.973

0.531
  pilD Vibrio cholerae strain A1552

52.5

95.89

0.503
  pilD Vibrio campbellii strain DS40M4

50.515

99.658

0.503
  pilD Neisseria gonorrhoeae MS11

43.561

90.411

0.394