Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AB8516_RS10045 Genome accession   NZ_OZ156465
Coordinates   2292027..2292899 (+) Length   290 a.a.
NCBI ID   WP_369160327.1    Uniprot ID   -
Organism   Candidatus Thiodiazotropha sp. LNASS1 isolate 6c41e2f9-faec-415b-97c3-6ddcd12de2e9     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2287027..2297899
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB8516_RS10025 tnpA 2287082..2287464 (-) 383 Protein_1977 IS200/IS605 family transposase -
  AB8516_RS10030 - 2287969..2288430 (-) 462 WP_369160321.1 pilin -
  AB8516_RS10035 pilB 2289033..2290748 (+) 1716 WP_369160323.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB8516_RS10040 pilC 2290752..2291981 (+) 1230 WP_369160325.1 type II secretion system F family protein Machinery gene
  AB8516_RS10045 pilD 2292027..2292899 (+) 873 WP_369160327.1 A24 family peptidase Machinery gene
  AB8516_RS10050 coaE 2292899..2293495 (+) 597 WP_369160329.1 dephospho-CoA kinase -
  AB8516_RS10055 clpB 2293676..2296270 (-) 2595 WP_369160331.1 ATP-dependent chaperone ClpB -
  AB8516_RS10060 purE 2296576..2297076 (-) 501 WP_069122605.1 5-(carboxyamino)imidazole ribonucleotide mutase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32416.35 Da        Isoelectric Point: 8.5993

>NTDB_id=1167914 AB8516_RS10045 WP_369160327.1 2292027..2292899(+) (pilD) [Candidatus Thiodiazotropha sp. LNASS1 isolate 6c41e2f9-faec-415b-97c3-6ddcd12de2e9]
MVVISFLQENSWALLLFTTLLGLVVGSFLNVVILRLPKMMENQWRSDCAELNGEQATTPSESYNLSQPASHCPKCRHKIR
FWENIPVISWLLLRGRCSNCKAPISPRYPVIEAMTGLFSFAVAYHFGFTWATLAALFLTWALIALSVIDFDVQLLPDNIT
LPFLWLGLLISLGNVFTDPRTALIGAAAGYLSLWSVYQLFKRLTGKEGMGYGDFKLLAMLGAWLGWHYLPQIILLSALVG
AVVGILLIVVRGRDRNIPIPFGPYLAAAGWISLMWGEQINTAYLRWSGMM

Nucleotide


Download         Length: 873 bp        

>NTDB_id=1167914 AB8516_RS10045 WP_369160327.1 2292027..2292899(+) (pilD) [Candidatus Thiodiazotropha sp. LNASS1 isolate 6c41e2f9-faec-415b-97c3-6ddcd12de2e9]
GTGGTTGTTATCAGTTTCCTGCAGGAAAATAGCTGGGCCTTGCTCCTGTTTACAACACTTTTGGGATTGGTAGTCGGCAG
TTTTCTCAATGTTGTCATTCTTCGTCTGCCGAAAATGATGGAGAACCAATGGCGCAGTGACTGTGCCGAATTGAATGGCG
AACAGGCAACCACACCTTCAGAGTCCTATAATCTCAGCCAACCCGCTTCCCACTGCCCCAAGTGCCGCCATAAGATCCGG
TTTTGGGAGAATATCCCGGTCATTAGCTGGCTGCTACTGAGAGGTCGCTGCTCCAATTGCAAGGCTCCAATCAGTCCAAG
ATACCCGGTTATTGAAGCAATGACCGGTCTATTCTCCTTTGCTGTCGCCTACCATTTCGGCTTCACCTGGGCCACCCTGG
CGGCACTCTTTCTGACCTGGGCCTTGATCGCCCTCAGCGTGATCGATTTCGATGTCCAGCTGCTTCCCGATAATATCACT
CTCCCCTTTCTCTGGTTGGGATTACTGATCAGTCTTGGGAATGTATTCACCGACCCGCGCACCGCCCTTATCGGCGCCGC
TGCCGGGTACCTCTCTCTGTGGAGCGTCTATCAGCTTTTCAAGCGACTCACCGGCAAGGAGGGCATGGGGTATGGGGATT
TCAAACTGCTGGCGATGCTCGGGGCTTGGCTAGGCTGGCACTATCTGCCGCAGATCATCCTGCTCTCGGCCCTGGTTGGC
GCTGTAGTCGGTATCCTGTTGATCGTAGTGCGCGGTCGCGATCGTAATATTCCCATCCCCTTCGGTCCCTATCTGGCGGC
CGCGGGCTGGATCAGCCTGATGTGGGGGGAACAGATCAACACCGCCTATCTGCGCTGGTCCGGTATGATGTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(136-245)


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

54.286

96.552

0.524
  pilD Vibrio cholerae strain A1552

54.286

96.552

0.524
  pilD Acinetobacter baumannii D1279779

53.71

97.586

0.524
  pilD Acinetobacter nosocomialis M2

53.357

97.586

0.521
  pilD Neisseria gonorrhoeae MS11

50.988

87.241

0.445

Multiple sequence alignment