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) PSF113_RS59775
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
Pkinase PF00069.27 6.2e-47 8..249
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.    

>T6CP012522 NC_016830:c6670995-6667897 [Pseudomonas fluorescens F113] [PpkA]
MNIVIPGYDIEGPIGEGAMASVYLATQRSLERKVALKVMAAALAADPTFCERFLREGKTLARLSHPHTVTIHDIGNVGEL
YYMAMEYLPNGTLKERIAAGLTPEQGLTYIRQIASALGYAHGLGLVHRDVKPANILFRADGTAVLSDFGIAKSLDDRTQF
TQAGFAVGTPSYMSPEQARGQDIDGRADLYALGVVLYEILVGKLPYTGNDALSTALAHLTEPLPELPVHHGRYQDVLRKL
LAKDPAERFPDAAALLRALDNLPDESAEATLIRPLSLQLPQTPKPVDDLAGLTPMSIDIPSGPAYSPPPPPSQAKPQSKP
VAPPIKPTVQSSVSEQRKGPVFALAAVAVAVALALGGAGYWWLSGDDGKDVKTPVATTTSVKPPEVKPPKAPEVPAVKPP
VAPPAQPPVATEADGGQRPLLMAGKKTLFQRVLSKPGAKLADAPGAAPGKALPAFSVLYVYQRKDVDGGSWVRVGAATDG
RSDGWLPAAQVSDWKQSLVLKFTERSGRAPVMFLRQAGEVEKLLANPSAARNVLLKAQQSPQEDQQVLALEPAASAVPQS
QFYLLPIFDSRESLDENGQPVQLLNVASIDPGNTPKAASNTPITTANADAFRTAVVLVVDTTVSMQPYIDQVRDVVHELQ
TRIAERGELDSVSFGMVGFRSSIKKTPGLEYVAKTLISLEQGRDPQRFMELARQVKASTVSSHSFNEDAFAGVMEAVKGM
DWSGYGGRLILLVTDAGALRKNDPFAATQMNEAEVRQAALGKQIKIYALHLLSDAGKKTHGGAQSQYRTLTADANPQIGD
LYIPVPGADVRKFGERVDEIGSVFADLVHQVRSNKAQSVPLLSAAPSLADKSAAVGYAMHMDFLGRKSASQAPQLVSAWT
ADRDLTNPALPAFQVCVMLTKLQLNDLQQSLKLIVDAARKTQSSPKDFFQEIASASAYMSRDPSALRKGGNLADGGILGE
YLEGLPYRSKSLNMTQDLWLSLSVAEQEDFIDELDSKIRLYETFHNDLANWVRFGDAEPGDALYRVPLSTLP*

  Nucleotide sequence: 3099 bp    

>T6CP012522 NC_016830:c6670995-6667897 [Pseudomonas fluorescens F113] [PpkA]
TTGAACATTGTCATCCCCGGCTACGACATCGAAGGGCCGATCGGCGAAGGCGCGATGGCCAGCGTGTACCTGGCGACCCA
GCGTTCGCTGGAACGCAAGGTGGCGTTGAAAGTCATGGCCGCAGCCCTGGCAGCCGACCCGACCTTCTGCGAGCGTTTCC
TGCGCGAAGGCAAGACCCTGGCGCGCCTGTCGCACCCGCACACCGTCACCATCCATGACATCGGCAACGTCGGTGAGCTG
TACTACATGGCGATGGAGTACCTGCCCAACGGCACGCTCAAGGAACGCATCGCCGCGGGCCTGACGCCGGAGCAGGGCCT
GACCTACATCCGCCAGATCGCCTCGGCCTTGGGTTATGCCCACGGGTTGGGTCTGGTCCACCGTGACGTCAAGCCGGCCA
ACATCCTGTTCCGCGCCGATGGCACGGCGGTGCTTTCGGACTTCGGCATCGCCAAGTCCCTGGACGACCGCACCCAGTTC
ACCCAGGCCGGCTTTGCCGTCGGCACGCCCAGCTACATGAGCCCGGAACAGGCCCGTGGGCAAGACATCGACGGCCGCGC
CGATCTGTATGCCCTGGGTGTGGTGCTCTACGAAATCCTTGTCGGCAAACTGCCGTATACCGGCAACGACGCACTCTCCA
CCGCCCTGGCGCACCTGACCGAACCGTTGCCGGAACTGCCGGTGCACCACGGCCGTTACCAGGACGTGTTGCGCAAGCTG
CTGGCGAAGGATCCGGCGGAGCGTTTCCCGGATGCGGCGGCGTTGCTGCGGGCGTTGGATAACCTGCCAGACGAGTCGGC
GGAAGCGACGTTGATTCGTCCGTTGTCGTTGCAACTGCCGCAGACGCCGAAACCGGTGGATGACTTGGCGGGTTTGACGC
CCATGTCCATCGACATTCCCAGTGGCCCGGCTTACTCGCCACCGCCGCCACCATCGCAGGCAAAACCACAGTCCAAGCCC
GTTGCGCCGCCGATAAAGCCGACGGTTCAATCCTCGGTGTCGGAGCAACGCAAGGGGCCGGTGTTCGCCCTGGCTGCCGT
TGCGGTCGCCGTGGCGCTGGCGTTGGGTGGCGCGGGTTATTGGTGGTTGTCCGGTGATGACGGCAAAGACGTGAAGACGC
CAGTGGCCACGACCACCTCGGTCAAGCCCCCGGAAGTGAAGCCGCCCAAGGCCCCGGAAGTGCCAGCGGTCAAACCGCCC
GTTGCCCCGCCGGCTCAGCCGCCCGTGGCGACCGAGGCCGATGGCGGCCAGCGTCCGCTGTTGATGGCCGGCAAGAAAAC
CTTGTTCCAGCGCGTGCTCAGCAAACCGGGGGCGAAGCTCGCCGATGCGCCGGGCGCCGCACCGGGCAAGGCGCTGCCGG
CGTTTTCCGTGCTGTACGTGTATCAGCGCAAGGACGTCGACGGCGGTTCGTGGGTGCGGGTCGGCGCAGCCACCGACGGG
CGCAGCGACGGCTGGTTGCCCGCCGCCCAGGTCAGCGACTGGAAGCAGAGCCTGGTGCTCAAGTTCACCGAACGTTCCGG
CCGTGCGCCGGTGATGTTCCTGCGTCAGGCCGGTGAAGTGGAGAAGCTCCTGGCTAACCCTTCGGCGGCCAGGAACGTGT
TGCTCAAGGCCCAGCAGAGTCCGCAGGAGGACCAGCAAGTGCTGGCCCTGGAGCCGGCCGCCAGTGCGGTGCCGCAGAGC
CAGTTCTACCTGTTGCCGATCTTCGATTCCCGCGAAAGCCTGGATGAAAATGGCCAGCCGGTGCAGTTGCTGAATGTCGC
GTCGATCGACCCTGGCAACACCCCCAAGGCTGCGAGCAACACGCCGATCACCACCGCCAACGCCGATGCGTTCCGCACGG
CTGTGGTGCTGGTGGTGGACACCACCGTGTCGATGCAACCTTACATCGACCAGGTGCGCGACGTGGTCCACGAACTGCAA
ACTCGCATCGCCGAGCGCGGCGAGTTGGACAGCGTCAGCTTCGGCATGGTGGGTTTCCGCAGCAGCATCAAGAAAACCCC
GGGCCTGGAATACGTCGCCAAGACCTTGATCAGCCTGGAGCAGGGCCGCGACCCGCAACGCTTCATGGAACTGGCGCGAC
AGGTCAAGGCATCGACGGTGTCGAGCCATTCGTTCAACGAAGATGCGTTTGCCGGGGTCATGGAAGCCGTCAAAGGCATG
GACTGGTCCGGTTACGGCGGGCGTTTGATCCTGTTGGTCACCGACGCCGGGGCCCTGCGCAAGAACGATCCATTTGCCGC
CACGCAAATGAACGAGGCCGAAGTGCGCCAGGCGGCGCTGGGCAAGCAGATCAAGATCTACGCCCTGCACCTGCTCAGCG
ACGCCGGCAAGAAAACCCACGGCGGTGCCCAAAGCCAGTACCGCACCCTGACCGCCGACGCCAACCCGCAGATCGGCGAC
CTGTACATTCCGGTGCCGGGCGCCGATGTACGCAAGTTCGGCGAGCGCGTCGACGAGATCGGTTCGGTGTTTGCCGACCT
GGTGCATCAGGTGCGCAGCAACAAGGCGCAAAGCGTGCCGCTGCTCAGTGCCGCGCCGAGCCTGGCCGACAAATCGGCCG
CGGTCGGCTACGCGATGCACATGGACTTTTTGGGGCGTAAATCCGCCAGCCAGGCGCCGCAACTGGTCAGCGCCTGGACC
GCCGACCGCGACCTGACCAACCCGGCGCTGCCGGCGTTCCAGGTCTGCGTGATGCTGACCAAGCTGCAACTCAACGACCT
GCAGCAGTCGCTCAAACTGATCGTCGACGCGGCCCGCAAGACCCAGAGTTCGCCCAAGGACTTCTTCCAGGAAATCGCCA
GCGCCAGTGCCTACATGAGCCGCGACCCGTCGGCCCTGCGCAAGGGCGGCAACCTGGCCGACGGCGGGATTCTCGGCGAG
TACCTCGAAGGGCTGCCATACCGCAGCAAGTCGCTGAACATGACCCAGGATCTGTGGCTGTCCTTGAGCGTGGCCGAGCA
GGAAGATTTCATCGACGAACTGGATTCGAAAATCCGTCTCTACGAAACCTTCCACAACGACCTCGCCAACTGGGTGCGCT
TCGGCGATGCCGAGCCGGGTGACGCCTTGTACCGTGTTCCGTTGTCGACGCTGCCGTGA