Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   BUQ73_RS22960 Genome accession   NZ_CP018846
Coordinates   5058824..5059690 (+) Length   288 a.a.
NCBI ID   WP_079229805.1    Uniprot ID   -
Organism   Pseudomonas putida strain AA7     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5053824..5064690
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BUQ73_RS29050 - 5054072..5054371 (-) 300 WP_416171801.1 hypothetical protein -
  BUQ73_RS22940 - 5055348..5056676 (-) 1329 WP_079229802.1 tyrosine-type recombinase/integrase -
  BUQ73_RS22950 - 5056987..5057397 (-) 411 WP_079229803.1 pilin -
  BUQ73_RS22955 - 5057613..5058821 (+) 1209 WP_079229804.1 type II secretion system F family protein -
  BUQ73_RS22960 pilD 5058824..5059690 (+) 867 WP_079229805.1 prepilin peptidase Machinery gene
  BUQ73_RS22965 coaE 5059690..5060313 (+) 624 WP_079229806.1 dephospho-CoA kinase -
  BUQ73_RS22970 yacG 5060310..5060510 (+) 201 WP_027918234.1 DNA gyrase inhibitor YacG -
  BUQ73_RS22975 - 5060689..5061372 (-) 684 WP_079229807.1 energy-coupling factor ABC transporter permease -
  BUQ73_RS22980 - 5061517..5062146 (+) 630 WP_027918232.1 DUF1780 domain-containing protein -
  BUQ73_RS22985 - 5062279..5062452 (+) 174 WP_003247547.1 DUF3094 family protein -
  BUQ73_RS22990 - 5062537..5063832 (+) 1296 WP_079229808.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31642.36 Da        Isoelectric Point: 6.5908

>NTDB_id=210981 BUQ73_RS22960 WP_079229805.1 5058824..5059690(+) (pilD) [Pseudomonas putida strain AA7]
MTSWTLLAEQPAYFITLAAVLGLLVGSFLNVVVHRLPIMLERQWQREAQEVLGLPTTEHERFNLSLPASHCPHCNHAIRA
WENIPVISYLALRGRCSACKQPISARYPLVEVACALLSMAVAWHSGTSTEALALLLLTWSLLTLSLIDHDQQLLPDVLVL
PTLWLGLIVNAFDTVVPLPDALWGAVAGYLSLWSVYWVFKLVTGKEGMGYGDFKLLALIGAWGGWQVLPVTLLLSSVIGV
VAGLCLLRVRRQSVGTAIPFGPYLAIAGWIAVLWGDEIYASYLQLFGM

Nucleotide


Download         Length: 867 bp        

>NTDB_id=210981 BUQ73_RS22960 WP_079229805.1 5058824..5059690(+) (pilD) [Pseudomonas putida strain AA7]
ATGACTTCATGGACTTTGCTGGCCGAACAGCCGGCCTACTTCATCACGCTGGCGGCTGTGCTCGGCCTGCTGGTGGGCAG
CTTCCTCAATGTGGTGGTGCATCGCCTGCCGATCATGCTCGAGCGCCAGTGGCAGCGTGAGGCGCAGGAGGTGCTGGGCT
TGCCGACCACCGAGCACGAGCGCTTCAATCTGTCCCTCCCCGCTTCCCACTGCCCCCATTGCAACCACGCGATCCGCGCC
TGGGAGAACATTCCCGTAATCAGTTACCTGGCGTTGCGTGGGCGCTGCTCGGCGTGCAAGCAGCCGATCAGTGCACGTTA
TCCGCTGGTCGAGGTGGCCTGTGCGCTGTTGTCGATGGCAGTGGCCTGGCATTCCGGCACAAGCACCGAGGCCCTGGCAC
TGCTGCTGCTGACCTGGAGCCTGCTGACGCTGAGTCTGATCGACCATGACCAGCAGCTATTGCCCGATGTGCTGGTGCTG
CCGACGCTGTGGCTGGGCCTGATCGTCAATGCCTTCGACACTGTGGTGCCATTGCCCGATGCACTGTGGGGCGCAGTGGC
CGGGTACCTGAGCCTGTGGTCGGTGTACTGGGTGTTCAAGCTGGTCACTGGCAAGGAAGGCATGGGCTATGGCGACTTCA
AGCTGCTGGCGCTGATCGGGGCCTGGGGTGGCTGGCAGGTATTGCCGGTGACCTTGCTGCTGTCATCGGTGATCGGCGTG
GTGGCGGGCCTGTGCCTGCTGCGCGTGCGCAGGCAGTCCGTCGGCACTGCCATACCCTTTGGCCCTTATCTGGCCATTGC
GGGGTGGATTGCTGTGCTCTGGGGTGATGAAATATACGCCTCCTACCTGCAACTGTTTGGAATGTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(136-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-124)


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

54.513

96.181

0.524
  pilD Vibrio campbellii strain DS40M4

51.812

95.833

0.497
  pilD Acinetobacter baumannii D1279779

49.466

97.569

0.483
  pilD Neisseria gonorrhoeae MS11

51.301

93.403

0.479
  pilD Acinetobacter nosocomialis M2

49.11

97.569

0.479

Multiple sequence alignment