Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LOY40_RS24610 Genome accession   NZ_CP102179
Coordinates   5474407..5475276 (+) Length   289 a.a.
NCBI ID   WP_258648294.1    Uniprot ID   -
Organism   Pseudomonas alvandae strain B21-020     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5469407..5480276
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LOY40_RS24585 (LOY40_24585) - 5469523..5469822 (+) 300 WP_030140249.1 DUF2845 domain-containing protein -
  LOY40_RS24590 (LOY40_24590) - 5470138..5470491 (-) 354 WP_030140250.1 BON domain-containing protein -
  LOY40_RS24595 (LOY40_24595) - 5470836..5471258 (-) 423 WP_030140251.1 pilin -
  LOY40_RS24600 (LOY40_24600) pilB 5471485..5473185 (+) 1701 WP_258648293.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LOY40_RS24605 (LOY40_24605) pilC 5473188..5474405 (+) 1218 WP_030140253.1 type II secretion system F family protein Machinery gene
  LOY40_RS24610 (LOY40_24610) pilD 5474407..5475276 (+) 870 WP_258648294.1 A24 family peptidase Machinery gene
  LOY40_RS24615 (LOY40_24615) coaE 5475276..5475899 (+) 624 WP_030140255.1 dephospho-CoA kinase -
  LOY40_RS24620 (LOY40_24620) yacG 5475896..5476102 (+) 207 WP_030140256.1 DNA gyrase inhibitor YacG -
  LOY40_RS24625 (LOY40_24625) - 5476174..5476389 (-) 216 WP_030140257.1 hypothetical protein -
  LOY40_RS24630 (LOY40_24630) - 5476453..5477139 (-) 687 WP_030140258.1 energy-coupling factor ABC transporter permease -
  LOY40_RS24635 (LOY40_24635) - 5477211..5477624 (-) 414 WP_030140259.1 tautomerase family protein -
  LOY40_RS24640 (LOY40_24640) - 5477766..5478659 (+) 894 WP_258648295.1 LysR substrate-binding domain-containing protein -
  LOY40_RS24645 (LOY40_24645) - 5478727..5479353 (+) 627 WP_030140261.1 DUF1780 domain-containing protein -
  LOY40_RS24650 (LOY40_24650) - 5479350..5479877 (+) 528 WP_198798128.1 MOSC domain-containing protein -
  LOY40_RS24655 (LOY40_24655) - 5479930..5480103 (+) 174 WP_003185543.1 DUF3094 domain-containing protein -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31957.09 Da        Isoelectric Point: 8.0572

>NTDB_id=715306 LOY40_RS24610 WP_258648294.1 5474407..5475276(+) (pilD) [Pseudomonas alvandae strain B21-020]
MPLSEFFVLYPLAFVLTALLLGLIIGSFLNVLVWRLPKMLDREWRLQAQDLLGLPAEAPGPVYNLMLPHSQCPHCGHRIR
AWENIPLFSYLALRGRCSSCTAPIGKRYPLTELACGALSAFVAWHFGFGWHAAMAMVLSWGLLSMSLIDAEHQLLPDSLV
LPLLWLGLIVNSFGLFVSLNQALWGAVGGYLVLWVVFWVFKLLTGKEGMGYGDFKLLAMLGAWGGWQILPVTLLLSSLVG
AVVGVVMLRMRNAPTSTQIPFGPYLAIAGWIALLWGGQITDFYWHSVGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=715306 LOY40_RS24610 WP_258648294.1 5474407..5475276(+) (pilD) [Pseudomonas alvandae strain B21-020]
ATGCCCTTGAGCGAATTCTTCGTGCTTTACCCCTTGGCTTTCGTGCTGACGGCACTGCTGCTCGGGCTGATCATTGGCAG
TTTTCTCAACGTGCTGGTTTGGCGTCTGCCGAAGATGCTTGACCGTGAATGGCGGCTACAAGCCCAGGACTTGCTCGGAC
TGCCGGCCGAAGCTCCCGGCCCGGTCTACAACCTGATGCTGCCCCACTCCCAGTGCCCGCACTGCGGCCACCGCATCCGC
GCCTGGGAAAATATTCCACTGTTCAGCTACCTGGCGTTGCGCGGGCGCTGCTCCAGTTGCACCGCCCCCATCGGCAAGCG
CTACCCATTGACCGAACTGGCTTGTGGCGCCCTGTCGGCGTTCGTCGCCTGGCATTTCGGCTTCGGCTGGCATGCGGCAA
TGGCGATGGTGCTGAGCTGGGGCTTGTTGTCCATGAGCCTGATCGACGCCGAGCATCAATTGCTGCCCGACTCTCTCGTA
CTGCCCTTGTTGTGGCTGGGCTTGATCGTCAACAGCTTCGGGCTGTTCGTGTCCCTCAACCAGGCATTATGGGGCGCTGT
CGGCGGTTATCTGGTGCTGTGGGTGGTGTTCTGGGTGTTCAAGTTGCTGACCGGCAAGGAAGGCATGGGCTATGGCGACT
TCAAGCTGCTGGCGATGCTGGGCGCCTGGGGCGGCTGGCAAATCCTGCCAGTGACGCTGCTGCTGTCTTCGCTGGTGGGC
GCCGTCGTCGGCGTCGTCATGCTGCGCATGCGCAACGCACCGACATCGACACAGATCCCCTTCGGACCCTATCTGGCGAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTTCTATTGGCACTCAGTCGGTTTCTAA

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 cholerae strain A1552

52.465

98.27

0.516
  pilD Vibrio campbellii strain DS40M4

49.474

98.616

0.488
  pilD Neisseria gonorrhoeae MS11

47.387

99.308

0.471
  pilD Acinetobacter nosocomialis M2

46.263

97.232

0.45
  pilD Acinetobacter baumannii D1279779

46.263

97.232

0.45