Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   PSJM300_03955 Genome accession   CP003725
Coordinates   876489..877358 (+) Length   289 a.a.
NCBI ID   AFN76869.1    Uniprot ID   -
Organism   Pseudomonas stutzeri DSM 10701     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 871489..882358
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSJM300_03935 pilA/pilAII 872331..872756 (-) 426 AFN76865.1 fimbrial protein pilin: general secretion pathway protein H Regulator
  PSJM300_03940 pilA/pilAI 872824..873243 (-) 420 AFN76866.1 fimbrial protein pilin: general secretion pathway protein H Machinery gene
  PSJM300_03945 pilB 873564..875267 (+) 1704 AFN76867.1 type 4 fimbrial biogenesis protein PilB Machinery gene
  PSJM300_03950 pilC 875269..876486 (+) 1218 AFN76868.1 type 4 pilus biogenesis protein PilC Machinery gene
  PSJM300_03955 pilD 876489..877358 (+) 870 AFN76869.1 type 4 prepilin peptidase PilD Machinery gene
  PSJM300_03960 coaE 877599..878207 (+) 609 AFN76870.1 dephospho-CoA kinase -
  PSJM300_03965 - 878204..878398 (+) 195 AFN76871.1 DNA gyrase inhibitor -
  PSJM300_03970 - 878730..879926 (+) 1197 AFN76872.1 FHA domain-containing protein -
  PSJM300_03975 - 879933..880415 (+) 483 AFN76873.1 hypothetical protein -
  PSJM300_03980 - 880418..881749 (+) 1332 AFN76874.1 hypothetical protein -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31817.81 Da        Isoelectric Point: 7.0084

>NTDB_id=20261 PSJM300_03955 AFN76869.1 876489..877358(+) (pilD) [Pseudomonas stutzeri DSM 10701]
MTPVEFLASNPLAFVLCALVLGLLVGSFLNVVIHRLPIMMQRDWQSQAREFLELPAEPAGAAFNLFLPHSRCPHCDHQIR
AWENIPLISWLALRGKCSACKASISKRYPLVELACGLLSGYVAWHFGFSWQAGAMLLLTWGLLAMSMIDVDHQLLPDSLV
LPLLWLGLIINSFGLFASLEDALWGAVVGYLALWSVYWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQVLPLTILLSSVVG
AVLGTVMLRMQKAESGTPIPFGPYLAIAGWVALLWGDQITASYLQFARL

Nucleotide


Download         Length: 870 bp        

>NTDB_id=20261 PSJM300_03955 AFN76869.1 876489..877358(+) (pilD) [Pseudomonas stutzeri DSM 10701]
ATGACTCCTGTCGAATTTCTGGCCAGCAACCCGCTGGCCTTTGTTTTGTGCGCGCTGGTGCTTGGCCTGCTGGTCGGCAG
CTTCCTCAACGTAGTCATCCATCGCTTGCCGATCATGATGCAGCGTGATTGGCAATCGCAGGCGCGGGAGTTTCTCGAGT
TACCTGCCGAGCCTGCCGGCGCTGCCTTCAATCTGTTTCTCCCGCATTCACGTTGCCCCCACTGCGACCACCAGATCCGC
GCCTGGGAAAATATTCCGCTGATCAGCTGGCTGGCGCTGCGTGGCAAGTGTTCGGCGTGCAAGGCGTCGATCAGCAAGCG
CTACCCGCTGGTCGAGCTGGCGTGTGGGTTGCTCTCGGGTTACGTCGCCTGGCATTTCGGTTTTTCCTGGCAGGCTGGCG
CGATGCTGCTGCTGACCTGGGGTTTGCTGGCGATGAGCATGATCGATGTCGATCATCAGTTGCTGCCGGATTCGCTGGTG
CTGCCGCTGCTCTGGCTGGGCTTAATCATTAACAGCTTCGGACTGTTCGCTTCGCTGGAAGATGCGTTGTGGGGCGCAGT
TGTGGGTTACCTCGCCCTGTGGTCGGTGTACTGGCTGTTCAAGCTGGTGACCGGCAAGGAGGGGATGGGCTACGGCGACT
TCAAGCTGTTGGCCATGTTGGGCGCTTGGGGCGGCTGGCAGGTGCTGCCGCTGACTATCTTGCTGTCTTCGGTGGTCGGC
GCGGTGCTGGGCACCGTCATGCTGCGTATGCAGAAGGCCGAGAGCGGCACGCCCATTCCCTTCGGCCCCTATCTGGCGAT
CGCTGGCTGGGTCGCATTGCTTTGGGGGGACCAGATCACTGCCAGCTACCTGCAGTTCGCCAGACTGTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(137-244)


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

55.282

98.27

0.543
  pilD Vibrio campbellii strain DS40M4

54.417

97.924

0.533
  pilD Acinetobacter nosocomialis M2

50.53

97.924

0.495
  pilD Acinetobacter baumannii D1279779

50.53

97.924

0.495
  pilD Neisseria gonorrhoeae MS11

50.554

93.772

0.474

Multiple sequence alignment