Detailed information of component protein


Summary

Component ID T6CP000343
Component protein type TssM
T6SS ID (Type) T6SS00041 insolico (Type i1)
Strain Pseudomonas syringae pv. tomato str. DC3000
Replicon chromosome
Sequence Protein sequence (1169 a.a.); Nucleotide sequence (3507 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
insolico Bioinformatics investigation has been performed on this T6SS
External database links

Locus tag (Gene) PSPTO_RS13220
Coordinate (Strand) 2820042..2823548 (+)
NCBI ID WP_011104079.1
RefSeq NC_004578
Uniprot ID -
KEGG ID -
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
IcmF-related PF06761.14 3.9e-68 497..786
IcmF-related_N PF14331.8 8.2e-68 198..446
IcmF_C PF06744.14 2.8e-20 1043..1147
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Inside 1-16 MKSLFKKLIEVLCKTW
Transmembrane helix 17-39 VWSLLLVFLLAASIWSFGPLLAV
Outside 40-48 SDNRFWEGT
Transmembrane helix 49-71 SARLITISVLFLVWGLGMVFTNW
Inside 72-441 RGSLIKRQAEESETGKECLRKSVVMEKERLELASRFTDAQRVLKDSALFGELGARGRKELPWYVLIGPQGSGKTSLLDFSGLDFPLDRPARKLTRDTSSTGSCDWYFTHQAILLDTSGRYFDQPDPQVDGGAWMTLLGLLQGRLRTQPLSGVLVTLPVDILLDGLDKRLEKVAGDVRVRLDEIFRRLHVDVPVYLVLTKADSIAGFDDFFDQLSREESEQVLGTTFKKGQRGTDVDVISQAFETLLQRLGSQVITRIHQERDSQRRGRMLEFPNQLGGIGRRLNIFAELAFSGNRYQRASQLRGFYLTRAPHVMQQGGQQPEPETGAGLPVQHGGRARFIHDLLRHVIFPESDLAMLGKEARKKIQWRQK
Transmembrane helix 442-464 GMYCAALLFLAVSGALWATGFNA
Outside 465-1168 NHDRLEKLRTLGEQWTRQTSSLTAEDDLLTILASLNTLYEAARVFPDSDEVALYERSGLYQGQPANEVLMRAYHAGLQTQLLPRMVSMFEARILDSLRDREQLLSSLRAYLMLIQREHRLPSALETWATADWSIRYAGHAQAQRELNQHFKRLLALPFVYPANDALVAQARQVLRNESLATVVYRVLREKARVLPDYSLAHHTGPQEAVLAGADYRIPGLYTRQGYERYFVTHGTGLVTEIMRDNWVLGEGAPFSVTQLRALMVELEKLYFRDYADHWAEAIGRVSLHPFEGPAQGAVQMAGLAAAHSPLLRLLTEVRDNTRFPMLADSLDAAKTQVGKTVSTPAVLDQAVALGEQLQQSAASSLPETAKKSLQRRFDALHRLLDEESGPSADLMAALNAVNELQMQMAALARSGQPDLAAYEMAKGRMSGQRDALNNLRSAATVLPQPVGGWFDKLAEDTWSFVLYQSHHYLNQRYKAELYSFYEQSLDKRYPFHAHSSSDVALEDFREFFGPQGIAERFFDNYLRPFVSGSPGNLRLRTLDGYSLPMSRAYLHQMAGVHDIRKSFFSTHTPEPQVQFTLEPYTLDPGVRRAEFRLGDQSLEYRHGPIVPMGFKWPAGIDNGRASLVMDGRLGRPLGIEKNNGPWSLFRLFDLMQTEPLQGRDVLLLKADVGGMRAHYLLSSLRAPNPFDMTALRGFRMPAQL


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 0.9897 - -


  Protein sequence: 1169 a.a.    

>T6CP000343 NC_004578:2820042-2823548 [Pseudomonas syringae pv. tomato str. DC3000] [TssM]
MKSLFKKLIEVLCKTWVWSLLLVFLLAASIWSFGPLLAVSDNRFWEGTSARLITISVLFLVWGLGMVFTNWRGSLIKRQA
EESETGKECLRKSVVMEKERLELASRFTDAQRVLKDSALFGELGARGRKELPWYVLIGPQGSGKTSLLDFSGLDFPLDRP
ARKLTRDTSSTGSCDWYFTHQAILLDTSGRYFDQPDPQVDGGAWMTLLGLLQGRLRTQPLSGVLVTLPVDILLDGLDKRL
EKVAGDVRVRLDEIFRRLHVDVPVYLVLTKADSIAGFDDFFDQLSREESEQVLGTTFKKGQRGTDVDVISQAFETLLQRL
GSQVITRIHQERDSQRRGRMLEFPNQLGGIGRRLNIFAELAFSGNRYQRASQLRGFYLTRAPHVMQQGGQQPEPETGAGL
PVQHGGRARFIHDLLRHVIFPESDLAMLGKEARKKIQWRQKGMYCAALLFLAVSGALWATGFNANHDRLEKLRTLGEQWT
RQTSSLTAEDDLLTILASLNTLYEAARVFPDSDEVALYERSGLYQGQPANEVLMRAYHAGLQTQLLPRMVSMFEARILDS
LRDREQLLSSLRAYLMLIQREHRLPSALETWATADWSIRYAGHAQAQRELNQHFKRLLALPFVYPANDALVAQARQVLRN
ESLATVVYRVLREKARVLPDYSLAHHTGPQEAVLAGADYRIPGLYTRQGYERYFVTHGTGLVTEIMRDNWVLGEGAPFSV
TQLRALMVELEKLYFRDYADHWAEAIGRVSLHPFEGPAQGAVQMAGLAAAHSPLLRLLTEVRDNTRFPMLADSLDAAKTQ
VGKTVSTPAVLDQAVALGEQLQQSAASSLPETAKKSLQRRFDALHRLLDEESGPSADLMAALNAVNELQMQMAALARSGQ
PDLAAYEMAKGRMSGQRDALNNLRSAATVLPQPVGGWFDKLAEDTWSFVLYQSHHYLNQRYKAELYSFYEQSLDKRYPFH
AHSSSDVALEDFREFFGPQGIAERFFDNYLRPFVSGSPGNLRLRTLDGYSLPMSRAYLHQMAGVHDIRKSFFSTHTPEPQ
VQFTLEPYTLDPGVRRAEFRLGDQSLEYRHGPIVPMGFKWPAGIDNGRASLVMDGRLGRPLGIEKNNGPWSLFRLFDLMQ
TEPLQGRDVLLLKADVGGMRAHYLLSSLRAPNPFDMTALRGFRMPAQL*

  Nucleotide sequence: 3507 bp    

>T6CP000343 NC_004578:2820042-2823548 [Pseudomonas syringae pv. tomato str. DC3000] [TssM]
ATGAAATCCCTCTTTAAAAAGCTCATTGAAGTGTTGTGTAAAACCTGGGTCTGGTCACTGTTGCTGGTGTTTTTGTTGGC
GGCATCGATATGGAGTTTTGGTCCGCTGCTGGCGGTGTCGGATAACAGGTTCTGGGAAGGCACCAGCGCACGGTTGATAA
CAATCAGTGTGTTGTTTCTGGTGTGGGGGCTGGGGATGGTCTTTACCAACTGGCGCGGTAGCCTGATCAAAAGGCAGGCC
GAGGAAAGTGAGACGGGCAAAGAGTGCCTGCGCAAGTCGGTTGTGATGGAAAAGGAGCGCCTGGAACTTGCCAGTCGCTT
CACGGATGCCCAGCGCGTCCTCAAGGATTCCGCTCTGTTTGGAGAACTGGGCGCTCGCGGCCGCAAGGAGCTGCCCTGGT
ATGTATTGATCGGCCCTCAGGGCAGTGGCAAGACCAGTCTGCTGGATTTTTCCGGGCTCGATTTCCCCCTCGACAGACCG
GCTCGCAAACTGACTCGCGATACGAGCAGTACCGGCAGTTGCGACTGGTACTTCACACACCAGGCGATCCTTCTGGACAC
ATCGGGCCGCTATTTCGATCAGCCTGATCCCCAAGTGGACGGCGGCGCATGGATGACGCTGTTGGGGCTGTTACAGGGAC
GTCTGCGAACGCAGCCGCTCAGCGGTGTGCTGGTGACATTGCCGGTGGATATTCTTCTTGATGGCCTGGACAAGCGTCTG
GAGAAAGTCGCTGGAGATGTACGTGTTCGTCTGGACGAGATCTTTCGCCGGTTGCACGTTGATGTTCCGGTTTACCTGGT
GCTGACCAAAGCAGACTCGATAGCGGGTTTCGATGATTTCTTTGATCAATTGTCTCGCGAGGAAAGTGAGCAGGTCCTTG
GGACAACGTTCAAAAAAGGGCAGCGAGGCACCGATGTCGACGTCATCAGTCAGGCGTTCGAGACCTTGCTACAGCGCCTG
GGCAGTCAGGTCATAACTCGTATTCATCAGGAGCGCGACAGCCAGCGTCGGGGGAGAATGCTCGAGTTTCCCAATCAGCT
TGGGGGCATCGGACGCCGGCTGAATATTTTTGCCGAGTTGGCGTTTTCCGGGAACCGCTATCAGCGAGCCAGTCAATTGC
GTGGCTTTTACCTGACCCGTGCACCCCACGTCATGCAGCAGGGCGGTCAACAACCTGAGCCTGAAACCGGTGCGGGTCTT
CCTGTGCAACACGGTGGCCGCGCACGGTTTATTCATGATCTGTTACGTCATGTCATTTTTCCTGAGTCCGATCTGGCCAT
GCTCGGCAAAGAAGCCCGGAAGAAAATCCAGTGGCGGCAAAAGGGCATGTATTGTGCAGCGCTGCTATTTCTGGCGGTGT
CTGGTGCGCTCTGGGCGACCGGCTTCAATGCTAACCACGACAGGCTGGAAAAGCTTCGCACACTGGGTGAGCAGTGGACG
CGGCAGACGTCATCGCTCACCGCCGAAGATGATCTGCTGACGATCCTGGCCAGCTTGAACACCCTTTACGAGGCCGCTCG
GGTATTTCCGGACAGCGACGAAGTCGCTCTGTACGAACGTAGCGGGCTTTATCAGGGACAGCCTGCCAACGAGGTACTTA
TGCGCGCCTATCACGCTGGTTTGCAGACGCAACTGCTGCCACGAATGGTCAGCATGTTCGAAGCCCGGATACTGGACAGC
CTGCGGGACCGCGAGCAATTGCTGAGCAGCCTTCGCGCCTATCTGATGCTGATTCAGCGAGAGCACCGGTTACCTTCTGC
ACTGGAGACATGGGCCACCGCCGACTGGTCAATTCGCTATGCCGGGCACGCACAGGCTCAGCGCGAGCTGAACCAGCATT
TCAAGCGCTTGCTTGCGCTGCCTTTTGTCTATCCGGCCAACGATGCTCTGGTGGCGCAGGCGCGTCAGGTGTTGCGTAAT
GAATCACTCGCCACTGTGGTTTATCGGGTACTGCGTGAAAAAGCCCGGGTATTGCCGGATTACAGCCTGGCTCATCACAC
CGGGCCACAAGAAGCAGTGTTGGCAGGTGCCGACTATCGAATTCCAGGGCTTTATACGCGTCAGGGTTACGAGCGGTACT
TCGTCACACACGGCACCGGACTGGTGACTGAAATCATGCGTGACAATTGGGTACTGGGGGAGGGGGCACCGTTCAGCGTC
ACTCAATTGCGCGCGCTGATGGTCGAGCTGGAAAAGCTGTACTTCCGGGATTACGCCGACCATTGGGCAGAGGCCATTGG
CCGGGTTTCATTGCATCCTTTTGAGGGGCCAGCTCAGGGCGCAGTGCAAATGGCAGGCCTGGCGGCGGCCCATTCGCCTT
TGCTGAGGTTGCTGACCGAGGTGCGCGACAACACGCGGTTTCCGATGCTTGCGGACAGCCTTGACGCTGCGAAAACACAA
GTCGGTAAAACAGTTTCAACCCCTGCAGTGCTTGACCAGGCGGTTGCTCTTGGCGAGCAATTGCAACAGTCGGCTGCCAG
TAGTTTGCCCGAGACAGCCAAGAAATCATTGCAGCGACGTTTTGATGCGCTGCATCGATTGCTGGATGAGGAAAGCGGTC
CCTCAGCCGACCTGATGGCTGCGCTGAACGCCGTCAATGAGTTGCAGATGCAGATGGCCGCGCTGGCACGCTCCGGTCAA
CCTGATCTGGCTGCCTACGAGATGGCCAAAGGGCGGATGTCCGGGCAGCGAGATGCACTGAACAACCTGCGCAGCGCGGC
GACAGTGTTGCCTCAACCCGTCGGCGGCTGGTTTGACAAGCTGGCTGAAGACACCTGGAGTTTCGTGCTGTATCAGTCTC
ACCACTATCTGAACCAACGCTACAAGGCCGAGCTTTACAGTTTCTATGAGCAGTCTCTCGACAAACGCTATCCGTTTCAT
GCCCACAGCAGCAGCGACGTGGCGCTTGAGGACTTTCGTGAATTCTTCGGGCCACAAGGCATTGCCGAGCGGTTTTTCGA
TAACTACCTGAGGCCTTTTGTCAGCGGCAGCCCGGGAAACCTCCGCTTGCGCACCCTCGACGGTTACAGCCTGCCGATGA
GTCGTGCCTACCTGCACCAGATGGCCGGCGTGCATGACATCCGCAAAAGCTTCTTCAGCACTCACACACCGGAGCCGCAG
GTGCAATTCACCCTTGAGCCCTACACACTTGACCCTGGCGTGCGCCGCGCGGAATTTCGTCTGGGCGATCAGTCGCTGGA
GTATCGCCACGGTCCAATCGTGCCGATGGGGTTCAAATGGCCGGCAGGCATCGACAATGGGCGCGCGAGTCTGGTCATGG
ACGGTAGGCTCGGACGGCCGCTGGGCATAGAAAAGAACAACGGCCCATGGTCGCTGTTTCGCCTCTTCGACCTGATGCAG
ACCGAGCCTTTGCAAGGACGTGATGTGCTACTGCTCAAAGCCGATGTCGGCGGCATGCGCGCGCATTATCTTTTGTCGAG
CCTGCGCGCGCCCAATCCTTTCGATATGACTGCATTGCGCGGTTTTCGCATGCCTGCGCAGCTTTGA