Detailed information of component protein


Summary

Component ID T6CP000351
Component protein type TssF
T6SS ID (Type) T6SS00042 experimental (Type i1)
Strain Pseudomonas syringae pv. tomato str. DC3000
Replicon chromosome
Sequence Protein sequence (596 a.a.); Nucleotide sequence (1788 bp)
Reference
[1] Haapalainen M, Mosorin H, Dorati F, et al. Hcp2, a secreted protein of the phytopathogen Pseudomonas syringae pv. tomato DC3000, is required for fitness for competition against bacteria and yeasts. J Bacteriol. 2012 Sep;194(18):4810-22. doi: 10.1128/JB.00611-12. Epub 2012 Jun 29. PMID: 22753062
[2] Sarris PF, Skandalis N, Kokkinidis M, et al. In silico analysis reveals multiple putative type VI secretion systems and effector proteins in Pseudomonas syringae pathovars. Mol Plant Pathol. 2010 Nov;11(6):795-804. doi: 10.1111/j.1364-3703.2010.00644.x. PMID: 21091602
[3] Boyer F, Fichant G, Berthod J, et al. Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources? BMC Genomics. 2009 Mar 12;10:104. doi: 10.1186/1471-2164-10-104. PMID: 19284603
[4] 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
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) PSPTO_RS28075
Coordinate (Strand) 6170208..6171995 (-)
NCBI ID WP_046464013.1
RefSeq NC_004578
Uniprot ID UPI0002D92CD5
KEGG ID -
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_TssF PF05947.14 1.8e-142 3..591
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-595 VSFNHYYQSELTALRQLGRRFAERSPALAPFLGQAGRDPDVERLLEGFAFLTGRLRQKLDDELPELSHSLMHLLWPNYMRPLPAFSILQFDPLKRSGPALTVERDTPVDSKPINDVRCRFRTCYPTEVQALDLTALNYSVKGGGSLLSLRLEMSAEGHLGELELSRLRLHFAGERYISQMLYLCLLRNLEGIELIPLDAAGKPIDGVNGAPMAFKMPGDRVQPVGFAEEEALIPYPLNTFRGYRYLQEYFAFQDKFLFVDINGLDLLNALPEETLKQVRGLELRFDIRKSGIQRLRPTLDNVKLYCTPIVNLFKHDALPIRLDGKQDEYLLLPAEYGLETCGVFSVETVTGWKPGGLGYQDYVPFESFEHDPSFDVPNSRPHYSIRQRSSLLHEGLDTYLSFGIRHTEAHETLSIELMCTNQNLPRKLKLGEINVACEDTPEFLSFRNITPATSSFAPPLNRDFLWKLISNMSLNYLSLADVNALKVILETYDLPRYYDQHAEKVSKRLLGGLKSIKHQHVDRLHRGLPVRGLRTELTIDPEGYIGEGDMFVFASVLNEFFALYASLNSYHELRVKSTQGEVYQWTPRMGLQPLL


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 0.9893 - -


  Protein sequence: 596 a.a.    

>T6CP000351 NC_004578:c6171995-6170208 [Pseudomonas syringae pv. tomato str. DC3000] [TssF]
VSFNHYYQSELTALRQLGRRFAERSPALAPFLGQAGRDPDVERLLEGFAFLTGRLRQKLDDELPELSHSLMHLLWPNYMR
PLPAFSILQFDPLKRSGPALTVERDTPVDSKPINDVRCRFRTCYPTEVQALDLTALNYSVKGGGSLLSLRLEMSAEGHLG
ELELSRLRLHFAGERYISQMLYLCLLRNLEGIELIPLDAAGKPIDGVNGAPMAFKMPGDRVQPVGFAEEEALIPYPLNTF
RGYRYLQEYFAFQDKFLFVDINGLDLLNALPEETLKQVRGLELRFDIRKSGIQRLRPTLDNVKLYCTPIVNLFKHDALPI
RLDGKQDEYLLLPAEYGLETCGVFSVETVTGWKPGGLGYQDYVPFESFEHDPSFDVPNSRPHYSIRQRSSLLHEGLDTYL
SFGIRHTEAHETLSIELMCTNQNLPRKLKLGEINVACEDTPEFLSFRNITPATSSFAPPLNRDFLWKLISNMSLNYLSLA
DVNALKVILETYDLPRYYDQHAEKVSKRLLGGLKSIKHQHVDRLHRGLPVRGLRTELTIDPEGYIGEGDMFVFASVLNEF
FALYASLNSYHELRVKSTQGEVYQWTPRMGLQPLL*

  Nucleotide sequence: 1788 bp    

>T6CP000351 NC_004578:c6171995-6170208 [Pseudomonas syringae pv. tomato str. DC3000] [TssF]
GTGTCCTTTAACCATTACTACCAGAGCGAACTCACTGCACTGCGCCAGCTTGGTCGTCGCTTCGCCGAGCGTAGTCCGGC
GTTGGCGCCGTTTCTGGGGCAGGCCGGACGGGATCCGGATGTGGAGCGGTTGCTCGAGGGCTTTGCGTTTCTGACCGGGC
GGTTGCGTCAGAAGCTGGATGACGAGCTGCCGGAACTCAGTCATTCGCTGATGCACCTGCTGTGGCCCAATTACATGCGG
CCGTTGCCTGCGTTCAGTATTTTGCAGTTTGATCCGTTGAAACGTTCGGGTCCTGCGCTGACGGTCGAACGTGATACACC
GGTCGATAGCAAGCCTATTAATGACGTGCGTTGTCGCTTCCGTACGTGCTACCCGACCGAAGTTCAGGCGCTGGATCTGA
CCGCGCTGAATTACTCGGTGAAAGGCGGTGGTTCGTTGCTCAGCCTGCGCCTGGAGATGAGCGCTGAAGGTCACTTGGGT
GAGCTTGAACTGAGCCGCCTGCGTCTGCACTTTGCAGGCGAGCGCTATATCAGCCAGATGCTGTACCTCTGCCTGCTACG
CAATCTCGAGGGTATCGAGCTGATCCCTCTGGACGCTGCCGGCAAGCCCATCGACGGTGTCAATGGCGCGCCAATGGCGT
TCAAGATGCCGGGCGACCGTGTACAGCCGGTAGGGTTTGCCGAAGAAGAGGCGTTGATCCCGTATCCGCTGAACACGTTC
CGCGGTTATCGCTACCTGCAGGAGTACTTCGCGTTTCAGGACAAGTTCCTGTTCGTCGACATCAACGGTCTGGATCTGCT
CAACGCACTGCCAGAAGAGACACTCAAACAAGTGCGCGGCCTTGAGTTGCGCTTTGATATTCGCAAGAGCGGCATTCAGC
GTCTTCGTCCCACCCTGGATAACGTAAAGCTGTATTGCACGCCGATCGTCAACTTGTTCAAGCACGACGCCTTGCCGATT
CGCCTTGATGGCAAGCAGGACGAGTACCTGCTGCTGCCCGCCGAATATGGCCTGGAAACCTGTGGTGTGTTTTCGGTTGA
AACCGTGACCGGTTGGAAGCCGGGAGGTCTTGGCTATCAGGATTATGTGCCGTTCGAATCCTTTGAGCACGACCCCAGTT
TCGACGTGCCCAACAGCCGTCCGCATTACAGCATTCGCCAGCGTTCTTCTTTGCTCCATGAAGGCCTCGACACTTATCTG
AGTTTCGGCATTCGCCATACAGAAGCGCACGAAACCCTGTCGATCGAGTTGATGTGCACCAATCAGAACCTGCCACGCAA
ACTCAAACTGGGCGAAATCAACGTGGCCTGCGAAGATACGCCGGAGTTTTTGAGTTTCCGCAATATCACACCGGCTACCT
CCAGTTTCGCGCCCCCGCTGAACCGTGACTTCCTGTGGAAGTTGATCAGCAATATGTCGCTCAATTACTTGTCTCTGGCT
GACGTCAATGCGCTGAAGGTGATTCTGGAAACCTACGATTTGCCCCGTTACTACGACCAGCACGCGGAAAAAGTCAGCAA
GCGCCTGTTGGGCGGTTTGAAATCGATCAAGCATCAACACGTGGACAGATTGCACCGAGGGTTACCGGTACGCGGATTGC
GCACTGAGCTGACCATCGACCCGGAAGGGTATATCGGCGAAGGCGACATGTTTGTATTCGCTTCGGTTCTCAACGAGTTT
TTCGCGCTTTACGCCAGTCTCAATTCGTACCACGAGCTGCGGGTAAAAAGCACACAGGGAGAGGTGTACCAATGGACACC
ACGTATGGGCCTCCAGCCCCTGCTTTAA