Detailed information of component protein


Summary

Component ID T6CP012522
Component protein type PpkA
T6SS ID (Type) T6SS00540 experimental (Type i3)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (1033 a.a.); Nucleotide sequence (3099 bp)
Reference
[1] Barret M, Egan F, Fargier E, et al. Genomic analysis of the type VI secretion systems in Pseudomonas spp.: novel clusters and putative effectors uncovered. Microbiology (Reading). 2011 Jun;157(Pt 6):1726-1739. doi: 10.1099/mic.0.048645-0. Epub 2011 Apr 7. PMID: 21474537
[2] Redondo-Nieto M, Barret M, Morrissey J, et al. Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction. BMC Genomics. 2013 Jan 25;14:54. doi: 10.1186/1471-2164-14-54. PMID: 23350846
[3] Durán D, Bernal P, Vazquez-Arias D, et al. Pseudomonas fluorescens F113 type VI secretion systems mediate bacterial killing and adaption to the rhizosphere microbiome. Sci Rep. 2021 Mar 11;11(1):5772. doi: 10.1038/s41598-021-85218-1. PMID: 33707614
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene)
Coordinate (Strand) 6667897..6670995 (-)
NCBI ID WP_199771240.1
RefSeq NC_016830
Uniprot ID UPI0018F84D44
KEGG ID -
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Inside 1-340 MNIVIPGYDIEGPIGEGAMASVYLATQRSLERKVALKVMAAALAADPTFCERFLREGKTLARLSHPHTVTIHDIGNVGELYYMAMEYLPNGTLKERIAAGLTPEQGLTYIRQIASALGYAHGLGLVHRDVKPANILFRADGTAVLSDFGIAKSLDDRTQFTQAGFAVGTPSYMSPEQARGQDIDGRADLYALGVVLYEILVGKLPYTGNDALSTALAHLTEPLPELPVHHGRYQDVLRKLLAKDPAERFPDAAALLRALDNLPDESAEATLIRPLSLQLPQTPKPVDDLAGLTPMSIDIPSGPAYSPPPPPSQAKPQSKPVAPPIKPTVQSSVSEQRKGP
Transmembrane helix 341-363 VFALAAVAVAVALALGGAGYWWL
Outside 364-1032 SGDDGKDVKTPVATTTSVKPPEVKPPKAPEVPAVKPPVAPPAQPPVATEADGGQRPLLMAGKKTLFQRVLSKPGAKLADAPGAAPGKALPAFSVLYVYQRKDVDGGSWVRVGAATDGRSDGWLPAAQVSDWKQSLVLKFTERSGRAPVMFLRQAGEVEKLLANPSAARNVLLKAQQSPQEDQQVLALEPAASAVPQSQFYLLPIFDSRESLDENGQPVQLLNVASIDPGNTPKAASNTPITTANADAFRTAVVLVVDTTVSMQPYIDQVRDVVHELQTRIAERGELDSVSFGMVGFRSSIKKTPGLEYVAKTLISLEQGRDPQRFMELARQVKASTVSSHSFNEDAFAGVMEAVKGMDWSGYGGRLILLVTDAGALRKNDPFAATQMNEAEVRQAALGKQIKIYALHLLSDAGKKTHGGAQSQYRTLTADANPQIGDLYIPVPGADVRKFGERVDEIGSVFADLVHQVRSNKAQSVPLLSAAPSLADKSAAVGYAMHMDFLGRKSASQAPQLVSAWTADRDLTNPALPAFQVCVMLTKLQLNDLQQSLKLIVDAARKTQSSPKDFFQEIASASAYMSRDPSALRKGGNLADGGILGEYLEGLPYRSKSLNMTQDLWLSLSVAEQEDFIDELDSKIRLYETFHNDLANWVRFGDAEPGDALYRVPLSTLP


Signal peptides
  • Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep).
  • Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp).
  • Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep).
Prediction        Probability Cleavage site Signal peptide sequence
Other 0.9364 - -


  Protein sequence: 1033 a.a.    


  Nucleotide sequence: 3099 bp