Detailed information of component protein


Summary

Component ID T6CP000345
Component protein type TssM
T6SS ID (Type) T6SS00042 experimental (Type i1)
Strain Pseudomonas syringae pv. tomato str. DC3000
Replicon chromosome
Sequence Protein sequence (1176 a.a.); Nucleotide sequence (3528 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_RS28030
Coordinate (Strand) 6157343..6160870 (-)
NCBI ID WP_046464016.1
RefSeq NC_004578
Uniprot ID UPI00062173A6
KEGG ID -
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
IcmF-related_N PF14331.8 2.2e-80 198..452
IcmF-related PF06761.14 1.5e-73 503..792
IcmF_C PF06744.14 1.3e-21 1050..1155
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Inside 1-16 MKNFFKKVGAFLRKTW
Transmembrane helix 17-39 VWTLLLVLFVALLVWFVGPLLAV
Outside 40-48 DDYRFWESS
Transmembrane helix 49-71 TSRLLTISVLFLIWGLTMVFVSW
Inside 72-447 RSGVRKKALEESEDGQDRIRREEQIDEEQKELKTRFKDALKTLKTSSLYRGRSERWRSDLPWYLLIGPQGSGKTSLLDFSGLEFPINKIERKLTRDTLGTRHCDWYFADHGVLIDTAGRYLTQPDAEVDGSAWNTLLDLLRKRRRNRPLNGVLVTIPVETLLNESEQNLETLARQVRARLQDVHQKLHVDVPIYLVLSKADRLLGFEEFFDQLTREESDQVLGTSFRKEQMGTDVAVLRTEFEELLRRLNSQVIMRMHQERDTQRRGRILDFPHRLGQIGERLCLFVDLAFTGNRYQRVSQLRGFYLTSAPHLTEEMDATTAGIGANLGMSAGVLPTLRSGRSRFIHHLLSRVIFPEADLAGLDKRERSRIHWGQR
Transmembrane helix 448-470 ALYVGALVALALFGVLWAGGFSA
Outside 471-1175 NYSRLENLRSLAQTWTQQRSALSARDDSMAVLKTLDTSYAATQVFPEKGDVSYHERGGLYQGEDVNPVVRVAYERELHDQLLPRVANLLESQIRANTKDRDRLLNSLRAYLMLNMTDRRDAQWLKDWVATEWSQRYTGNTAVQNGLNTHFDRLLKQPFSYPLNDPLVAQARQILRSESLATVVYRMLREQARNLPEYTLGQHLGPQGALFVGTDYTIPGFYTQQGYQQYFSVQGTKLVTDILSDNWVLGEGAGLSTMDLRRLMVELEQLYFRDYANYWGEAIGEVQLPAINDFGEGAEQLAGLTSANSPVIQLLIEVRENTRFPVVADSAEEAADAAGQLAENGGKLGKLAVAAAGKASDALAKKLPDTARKSLQSRFEPLHRLLDDNNGPTADLTPALAALNELQLQMASLARSSSPDQAAFEMAKSRMGGQRDALSNLRTASGRLPRPVGVWFNVLAEDTWRLVLGDSYQYLNQRYQSELYSFYGKAISKRYPFDAHSASDVAISDFREFFKAQGIADRFFDNYMRPFVSGDAGNYRMRSVDGYSLPVSKVYLDQMAAALVIRQSFFADNPAEPQVQFKLEPYTLDPAVSRSEFKFGDKTIEYRHGPIVPVSFKWPTDAEDGRTSLVLDRMVGRPLGLEKNTGPWSLFRLFDLMQTEYLTGRDVLVLKADVGGLRANYLLTSQRTPNPFDMGALRTFRMPGQL


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 0.9964 - -


  Protein sequence: 1176 a.a.    

>T6CP000345 NC_004578:c6160870-6157343 [Pseudomonas syringae pv. tomato str. DC3000] [TssM]
MKNFFKKVGAFLRKTWVWTLLLVLFVALLVWFVGPLLAVDDYRFWESSTSRLLTISVLFLIWGLTMVFVSWRSGVRKKAL
EESEDGQDRIRREEQIDEEQKELKTRFKDALKTLKTSSLYRGRSERWRSDLPWYLLIGPQGSGKTSLLDFSGLEFPINKI
ERKLTRDTLGTRHCDWYFADHGVLIDTAGRYLTQPDAEVDGSAWNTLLDLLRKRRRNRPLNGVLVTIPVETLLNESEQNL
ETLARQVRARLQDVHQKLHVDVPIYLVLSKADRLLGFEEFFDQLTREESDQVLGTSFRKEQMGTDVAVLRTEFEELLRRL
NSQVIMRMHQERDTQRRGRILDFPHRLGQIGERLCLFVDLAFTGNRYQRVSQLRGFYLTSAPHLTEEMDATTAGIGANLG
MSAGVLPTLRSGRSRFIHHLLSRVIFPEADLAGLDKRERSRIHWGQRALYVGALVALALFGVLWAGGFSANYSRLENLRS
LAQTWTQQRSALSARDDSMAVLKTLDTSYAATQVFPEKGDVSYHERGGLYQGEDVNPVVRVAYERELHDQLLPRVANLLE
SQIRANTKDRDRLLNSLRAYLMLNMTDRRDAQWLKDWVATEWSQRYTGNTAVQNGLNTHFDRLLKQPFSYPLNDPLVAQA
RQILRSESLATVVYRMLREQARNLPEYTLGQHLGPQGALFVGTDYTIPGFYTQQGYQQYFSVQGTKLVTDILSDNWVLGE
GAGLSTMDLRRLMVELEQLYFRDYANYWGEAIGEVQLPAINDFGEGAEQLAGLTSANSPVIQLLIEVRENTRFPVVADSA
EEAADAAGQLAENGGKLGKLAVAAAGKASDALAKKLPDTARKSLQSRFEPLHRLLDDNNGPTADLTPALAALNELQLQMA
SLARSSSPDQAAFEMAKSRMGGQRDALSNLRTASGRLPRPVGVWFNVLAEDTWRLVLGDSYQYLNQRYQSELYSFYGKAI
SKRYPFDAHSASDVAISDFREFFKAQGIADRFFDNYMRPFVSGDAGNYRMRSVDGYSLPVSKVYLDQMAAALVIRQSFFA
DNPAEPQVQFKLEPYTLDPAVSRSEFKFGDKTIEYRHGPIVPVSFKWPTDAEDGRTSLVLDRMVGRPLGLEKNTGPWSLF
RLFDLMQTEYLTGRDVLVLKADVGGLRANYLLTSQRTPNPFDMGALRTFRMPGQL*

  Nucleotide sequence: 3528 bp    

>T6CP000345 NC_004578:c6160870-6157343 [Pseudomonas syringae pv. tomato str. DC3000] [TssM]
ATGAAAAACTTCTTCAAGAAAGTCGGCGCATTCCTGCGCAAGACATGGGTCTGGACGCTGCTGCTGGTGCTGTTTGTTGC
GCTGTTGGTGTGGTTCGTCGGACCGCTGCTGGCGGTTGATGATTACAGGTTCTGGGAAAGCTCCACCTCGCGTTTGCTGA
CTATCAGTGTGCTGTTCCTGATCTGGGGCCTGACGATGGTTTTCGTCAGTTGGCGCTCGGGTGTTCGCAAGAAAGCCCTC
GAAGAAAGCGAAGACGGCCAGGATCGCATCCGCCGAGAAGAGCAGATCGACGAAGAGCAGAAAGAACTGAAAACGCGTTT
CAAGGACGCGTTGAAAACGCTGAAAACGTCGAGCCTTTATCGCGGCCGTAGCGAACGCTGGCGCAGCGATCTGCCTTGGT
ACCTGCTGATTGGTCCGCAAGGCAGTGGTAAAACCAGCCTGCTGGATTTCTCGGGCCTTGAGTTTCCAATCAACAAGATT
GAACGCAAACTGACACGAGACACTCTGGGCACCCGTCACTGTGACTGGTACTTCGCCGATCACGGCGTGCTCATCGACAC
CGCTGGCCGCTACCTGACCCAGCCTGACGCCGAAGTCGACGGCAGTGCCTGGAACACCTTGTTGGACCTGCTGCGCAAAC
GTCGCCGCAATCGTCCGCTGAACGGTGTACTGGTGACCATTCCGGTTGAAACCCTGCTGAATGAAAGTGAGCAGAACCTT
GAAACACTCGCTCGTCAGGTGCGTGCGCGTTTGCAGGACGTGCATCAGAAACTGCACGTCGATGTGCCCATCTATCTGGT
TCTGAGCAAGGCCGACCGCTTGTTGGGCTTTGAAGAGTTCTTCGATCAACTGACGCGTGAAGAAAGCGATCAGGTCCTCG
GCACGAGCTTTCGCAAAGAGCAGATGGGCACCGATGTGGCGGTGTTGCGCACCGAGTTCGAAGAGCTGCTGCGTCGCCTG
AACAGTCAGGTGATCATGCGCATGCATCAAGAGCGTGACACGCAGCGTCGTGGTCGTATTCTCGACTTCCCGCATCGACT
GGGGCAGATCGGCGAGCGCCTGTGCCTGTTTGTCGATCTGGCATTCACGGGTAACCGCTACCAGCGCGTCAGTCAGTTGC
GCGGCTTCTACCTGACCAGTGCGCCGCATCTGACAGAGGAAATGGACGCTACCACCGCTGGCATCGGCGCCAATCTGGGC
ATGAGTGCAGGTGTACTGCCAACGCTTCGCAGCGGCCGATCACGATTCATCCATCATCTGCTCAGCCGGGTGATCTTTCC
GGAAGCCGATCTCGCGGGACTGGACAAGCGTGAGCGCAGTCGCATCCATTGGGGCCAACGTGCGTTGTACGTGGGCGCGC
TGGTAGCGTTGGCGCTGTTCGGCGTACTGTGGGCTGGCGGCTTTTCGGCCAACTATTCACGTCTGGAAAACCTGCGCAGT
CTGGCTCAGACCTGGACTCAGCAACGTTCGGCGCTGAGCGCCCGCGATGACTCCATGGCGGTGCTCAAAACGCTCGACAC
CAGTTACGCAGCCACTCAAGTGTTCCCGGAAAAAGGCGACGTGAGTTATCACGAGCGTGGCGGCCTGTATCAAGGCGAAG
ACGTCAATCCGGTGGTCAGGGTCGCTTACGAACGTGAGCTTCACGACCAGTTGCTGCCCCGCGTTGCAAACTTGCTGGAA
AGCCAGATCCGCGCCAACACCAAGGATCGCGACCGCCTGCTCAACAGCCTGCGTGCGTACCTGATGCTGAACATGACGGA
TCGCCGCGACGCTCAGTGGCTCAAGGATTGGGTCGCTACTGAATGGTCCCAGCGCTATACCGGCAACACCGCGGTACAGA
ACGGTTTGAACACCCATTTTGATCGTTTATTGAAACAGCCATTCAGCTATCCGTTGAATGATCCGCTGGTGGCTCAGGCG
CGTCAGATTCTGCGTAGCGAGTCTTTGGCGACTGTGGTTTACCGCATGCTGCGCGAGCAGGCCCGTAATCTGCCGGAATA
CACTTTGGGCCAGCACCTTGGTCCTCAGGGTGCGCTGTTTGTCGGCACCGATTACACGATCCCCGGCTTCTATACCCAAC
AGGGCTACCAGCAGTACTTCTCGGTTCAGGGCACCAAGCTGGTTACTGACATCCTTAGTGATAACTGGGTGCTGGGTGAA
GGTGCCGGTCTCAGCACGATGGACTTGCGCCGCCTGATGGTTGAACTGGAGCAGCTGTACTTCCGCGACTACGCCAACTA
TTGGGGGGAGGCGATAGGTGAGGTCCAACTGCCAGCAATCAATGACTTTGGGGAAGGCGCTGAGCAGTTGGCAGGTCTGA
CGTCAGCCAACTCCCCGGTCATCCAGTTGCTGATAGAGGTGCGTGAAAATACACGCTTCCCGGTGGTTGCCGATTCGGCG
GAAGAAGCTGCCGATGCAGCAGGGCAACTGGCAGAGAATGGTGGCAAGCTTGGCAAACTGGCCGTTGCCGCAGCAGGCAA
GGCATCTGATGCATTGGCGAAAAAGCTGCCGGATACCGCGAGGAAGTCTCTGCAAAGTCGCTTCGAGCCGTTGCACCGCT
TGCTGGATGACAACAATGGGCCGACTGCCGACCTGACGCCTGCCCTGGCCGCTCTTAATGAGCTGCAACTGCAGATGGCG
AGCCTTGCACGTTCCAGCTCGCCGGATCAGGCCGCCTTTGAAATGGCCAAAAGCCGAATGGGTGGCCAGCGCGACGCGCT
GAGCAATCTGCGCACGGCGTCCGGTCGTTTGCCGCGTCCGGTGGGCGTATGGTTCAACGTTCTGGCTGAAGACACCTGGC
GTCTGGTGCTGGGCGATTCCTATCAGTACCTGAACCAGCGCTACCAGAGCGAGCTGTACAGCTTCTATGGCAAAGCGATC
AGCAAGCGCTATCCGTTCGACGCGCACAGCGCCAGCGATGTGGCAATCAGCGACTTCCGTGAGTTCTTCAAGGCTCAGGG
CATTGCCGATCGCTTCTTCGATAACTACATGCGTCCGTTCGTGAGTGGCGATGCAGGCAACTATCGCATGCGTAGCGTCG
ATGGCTACAGCCTGCCGGTTTCCAAGGTCTATCTCGACCAGATGGCCGCGGCACTGGTGATCCGCCAAAGCTTCTTCGCC
GACAACCCGGCCGAGCCGCAGGTGCAGTTCAAGCTGGAGCCTTACACACTTGACCCGGCTGTCAGCCGCTCCGAGTTCAA
GTTTGGCGACAAGACCATTGAATACCGTCACGGTCCGATCGTACCGGTGTCCTTCAAATGGCCTACAGATGCGGAAGACG
GCCGCACCAGCCTGGTACTCGACAGAATGGTGGGTCGTCCGCTGGGTCTTGAGAAGAATACCGGCCCATGGTCGCTGTTC
CGTCTGTTCGACCTGATGCAGACCGAATACCTGACCGGACGTGACGTGTTGGTGCTCAAGGCTGACGTGGGTGGTCTGCG
CGCCAACTACCTGTTGACCAGCCAGCGTACGCCGAACCCGTTTGACATGGGCGCACTGCGTACCTTCCGCATGCCGGGGC
AGCTTTGA