Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ATY38_RS03615 Genome accession   NZ_CP013341
Coordinates   752065..752928 (+) Length   287 a.a.
NCBI ID   WP_062558097.1    Uniprot ID   -
Organism   Nitrosomonas ureae strain Nm10     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 747065..757928
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ATY38_RS03595 (ATY38_03595) - 747284..748459 (+) 1176 WP_062558093.1 heme biosynthesis HemY N-terminal domain-containing protein -
  ATY38_RS03600 (ATY38_03600) - 748614..749666 (-) 1053 WP_062558094.1 CDP-6-deoxy-delta-3,4-glucoseen reductase -
  ATY38_RS03605 (ATY38_03605) - 749714..750610 (+) 897 WP_062558095.1 SDR family oxidoreductase -
  ATY38_RS03610 (ATY38_03610) pilC 750809..752032 (+) 1224 WP_062558096.1 type II secretion system F family protein Machinery gene
  ATY38_RS03615 (ATY38_03615) pilD 752065..752928 (+) 864 WP_062558097.1 prepilin peptidase Machinery gene
  ATY38_RS03620 (ATY38_03620) coaE 752932..753528 (+) 597 WP_062558098.1 dephospho-CoA kinase -
  ATY38_RS03625 (ATY38_03625) zapD 753650..754405 (+) 756 WP_062558099.1 cell division protein ZapD -
  ATY38_RS03630 (ATY38_03630) - 754536..754721 (-) 186 WP_062558100.1 hypothetical protein -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31502.54 Da        Isoelectric Point: 8.4635

>NTDB_id=162154 ATY38_RS03615 WP_062558097.1 752065..752928(+) (pilD) [Nitrosomonas ureae strain Nm10]
MTLLSILQDSPVLFISLIALLGLMVGSFLNVVIYRLPEMLKRSWLQQCAELQGHQTSKTSPAFNLTSPRSACVHCGHKLN
IWENIPVISYLLLRGRCSQCNARISFRYPAVEALTALMSGIVAWYYGYSLITIAALIFVWALITLTVIDLNTQLLPDDIT
LPLLWLGLLVNINNGFTDIQSAVIGAAVGYLSLWSIYWCFKLITGKEGMGFGDFKLLSAIGAWLGWSMLPLVILFSSLVG
AIVGIGMIVAAKLNKNIPIPFGPYLAGGALIALFWGEKLNHAYFGLF

Nucleotide


Download         Length: 864 bp        

>NTDB_id=162154 ATY38_RS03615 WP_062558097.1 752065..752928(+) (pilD) [Nitrosomonas ureae strain Nm10]
ATGACCTTACTCAGCATATTGCAAGATTCTCCTGTTCTTTTTATTTCCTTGATAGCACTACTGGGTTTAATGGTGGGTAG
CTTTCTGAATGTTGTGATTTATCGACTGCCCGAGATGCTTAAAAGAAGTTGGCTGCAACAATGTGCAGAGTTGCAAGGTC
ACCAAACAAGCAAAACATCACCAGCATTTAATCTCACTAGTCCGCGTTCAGCTTGTGTTCATTGCGGGCACAAGCTGAAT
ATATGGGAAAATATTCCAGTGATCAGCTACCTACTGTTACGCGGCCGTTGCTCCCAATGTAACGCGCGCATTTCTTTTCG
TTATCCAGCTGTAGAAGCGCTAACAGCTTTAATGAGCGGCATCGTTGCTTGGTACTATGGATACAGTCTGATAACCATCG
CAGCATTGATTTTTGTATGGGCACTCATTACTTTGACAGTGATTGATCTCAATACACAACTATTGCCGGATGATATAACT
TTGCCGTTATTATGGCTGGGATTATTGGTAAATATTAATAATGGTTTTACCGATATTCAATCAGCCGTAATTGGCGCCGC
AGTAGGCTATCTTTCCTTATGGTCAATTTATTGGTGTTTTAAATTGATAACCGGAAAAGAAGGTATGGGGTTTGGTGACT
TTAAATTGCTGTCCGCTATTGGGGCTTGGCTAGGATGGAGCATGCTTCCACTGGTCATACTCTTTTCCTCGCTGGTGGGT
GCTATCGTAGGAATCGGAATGATCGTCGCTGCAAAACTCAATAAGAATATACCCATCCCTTTTGGCCCTTACCTTGCTGG
TGGGGCACTTATTGCATTGTTCTGGGGAGAAAAGTTAAATCATGCTTACTTTGGATTGTTCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(136-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


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

50.542

96.516

0.488
  pilD Neisseria gonorrhoeae MS11

51.88

92.683

0.481
  pilD Vibrio campbellii strain DS40M4

48.057

98.606

0.474
  pilD Acinetobacter baumannii D1279779

47.5

97.561

0.463
  pilD Acinetobacter nosocomialis M2

47.143

97.561

0.46

Multiple sequence alignment