Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   jpw_RS03305 Genome accession   NZ_CP107576
Coordinates   712951..713817 (-) Length   288 a.a.
NCBI ID   WP_253153134.1    Uniprot ID   -
Organism   Pseudomonas asiatica strain JP233     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 707951..718817
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  jpw_RS03270 (jpw_03270) - 708296..709591 (-) 1296 WP_003260618.1 NAD(P)/FAD-dependent oxidoreductase -
  jpw_RS03275 (jpw_03275) - 709676..709849 (-) 174 WP_013970765.1 DUF3094 family protein -
  jpw_RS03280 (jpw_03280) - 709983..710612 (-) 630 WP_013970766.1 DUF1780 domain-containing protein -
  jpw_RS03285 (jpw_03285) - 710668..711099 (-) 432 WP_015268860.1 hypothetical protein -
  jpw_RS03290 (jpw_03290) - 711186..711893 (+) 708 WP_191471990.1 energy-coupling factor ABC transporter permease -
  jpw_RS03295 (jpw_03295) yacG 712131..712331 (-) 201 WP_003260624.1 DNA gyrase inhibitor YacG -
  jpw_RS03300 (jpw_03300) coaE 712328..712951 (-) 624 WP_100413056.1 dephospho-CoA kinase -
  jpw_RS03305 (jpw_03305) pilD 712951..713817 (-) 867 WP_253153134.1 A24 family peptidase Machinery gene
  jpw_RS03310 (jpw_03310) - 713820..715028 (-) 1209 WP_264209746.1 type II secretion system F family protein -
  jpw_RS03315 (jpw_03315) pilA 715245..715655 (+) 411 WP_047934243.1 pilin Machinery gene
  jpw_RS03325 (jpw_03325) - 717044..717913 (+) 870 Protein_632 integrase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 32031.21 Da        Isoelectric Point: 7.6377

>NTDB_id=740767 jpw_RS03305 WP_253153134.1 712951..713817(-) (pilD) [Pseudomonas asiatica strain JP233]
MTLWTLLAEQPAYFLTLATVLGLLVGSFLNVLVYRLPIMLERQWQREAQEMLELPITPHERFDLWLPASRCPHCAHQIRA
WENIPVISYLALRGRCSACKTRISPRYPLVELASALLSLVVAWRFGASPEALLALPLTWCLLALSLIDAEHQLLPDALVL
PMLWLGLIVNAFGLYVPLTSALWGAVAGYLSLWTVYWVFKLVTGKEGMGYGDFKLMALIGAWGGWQVLPLTLLLSSVVGA
LAGLCLLRLRRHAMGTAIPFGPYLAIAGWIAVLWGDEIYVSYTNLLGF

Nucleotide


Download         Length: 867 bp        

>NTDB_id=740767 jpw_RS03305 WP_253153134.1 712951..713817(-) (pilD) [Pseudomonas asiatica strain JP233]
ATGACTTTATGGACTTTGCTGGCTGAGCAGCCGGCGTACTTTCTCACCCTGGCCACGGTGCTCGGCCTGCTGGTGGGCAG
TTTTCTCAATGTGCTGGTGTACCGCCTGCCGATCATGCTGGAGCGGCAATGGCAGCGTGAGGCGCAGGAAATGCTGGAGT
TGCCGATCACGCCGCACGAGCGTTTCGACCTGTGGCTACCCGCCTCGCGCTGCCCGCATTGCGCGCATCAGATTCGCGCG
TGGGAGAACATTCCGGTCATCAGCTACCTGGCCTTGCGCGGGCGTTGTTCAGCCTGCAAAACCCGCATCAGCCCGCGCTA
CCCATTGGTGGAGTTAGCCAGCGCGCTGCTGTCGCTGGTGGTGGCCTGGCGCTTTGGTGCTTCGCCCGAGGCCTTGCTGG
CGCTGCCGCTGACCTGGTGCCTGCTGGCTCTGAGCCTGATCGATGCCGAGCACCAGTTGCTTCCGGATGCGCTGGTGCTG
CCGATGCTGTGGCTGGGGCTGATCGTCAACGCCTTTGGCCTCTACGTCCCGCTGACCAGTGCGTTGTGGGGCGCGGTGGC
CGGGTACCTCAGCCTGTGGACGGTGTACTGGGTGTTCAAGCTGGTTACCGGCAAGGAGGGCATGGGCTATGGCGACTTCA
AGCTGATGGCGCTGATCGGGGCCTGGGGTGGCTGGCAGGTGTTGCCGTTGACCCTGCTGCTGTCGTCGGTGGTCGGGGCG
CTGGCTGGGCTGTGCCTGTTGCGCTTGCGCCGCCATGCCATGGGCACGGCGATCCCGTTTGGCCCCTATCTGGCGATTGC
GGGGTGGATTGCAGTGCTCTGGGGTGATGAAATATACGTCTCATACACAAACCTGCTTGGATTCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-244)

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

55.351

94.097

0.521
  pilD Acinetobacter baumannii D1279779

52.5

97.222

0.51
  pilD Acinetobacter nosocomialis M2

51.786

97.222

0.503
  pilD Vibrio campbellii strain DS40M4

50.89

97.569

0.497
  pilD Neisseria gonorrhoeae MS11

50.929

93.403

0.476