Detailed information of component protein


Summary

Component ID T6CP000339
Component protein type TssH
T6SS ID (Type) T6SS00041 insolico (Type i1)
Strain Pseudomonas syringae pv. tomato str. DC3000
Replicon chromosome
Sequence Protein sequence (868 a.a.); Nucleotide sequence (2604 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_RS13195
Coordinate (Strand) 2812959..2815562 (+)
NCBI ID WP_011104076.1
RefSeq NC_004578
Uniprot ID -
KEGG ID -
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
AAA_2 PF07724.16 5.3e-40 601..766
AAA_lid_9 PF17871.3 7.9e-30 347..440
ClpB_D2-small PF10431.11 1.9e-09 777..846
AAA PF00004.31 2.3e-08 208..339
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-867 MIDVDLQQLVKALDAPTRNELEGAAGRCVSRGSSQILVEDMLPGLLERPDGMLMRALSDADVSTAEFAGLILVPVEHSVDRTPVFAAELVQWFQDALLIATLDLGQSHIDQAALILALLRNPLRYADRPYQPLLAKINIERFRDYVLSRQASGTARQAIHQSDSLLERFTHNLTQQAREGSLDPVLCRDDCLRQMVDILARRRKNNPIVVGEAGVGKTAIVEGLALRIVRGEVPDLLKDVELLSLDMGLLQAGASIKGEFERRLKGVIDEVKSSPGSFILFIDEAHTLIGAGANAGGSDAANILKPALARGELRTIAATTWAEYRQYFEKDPALARRFQPVRVLEPTVEQAVTILRGLAPLYEQSHGVYLRDDAVVAAARLSARYISGRQLPDKAIDLLDTACARVQISLVAVPERLEHLRSEMVQQQRHLEAVQRDADAGLSVDDKVLSTLASSVSRIRKEAIVLEDAWLDQRKTARRVLDLRQQLAHRKIQQNALTTLDSDCQATQALESELAQAQQTILSTQLKDRLVSFEVCPRLVAQVVNAWTGIPLSQLVQEHSLSIADFSSDLRLRIRGQEQAVQVLERAVKASAAGLNAPNAPTGVFLLVGPSGVGKTETAIALADLLYGGERFLTTINMSEFQEKHTVSRLIGAPAGYVGYGEGGMLTDAVRQKPYSVILLDEVEKADPEVMNLFYQIFDKGVANDGEGREINFRNTLILMTSNLGGDLIHASCREGERPDADELAMRIKPLLTAHFKPALLARMRVVPYYPVTGVVLHELIELKLSRLGERLECRGLTFSYSPDLTRYLLECCTQSDSGARLIDHVLESRVTPLIADRLLSAASSGDSVSRAHATLDASGGIVCEFE


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 0.9932 - -


  Protein sequence: 868 a.a.    

>T6CP000339 NC_004578:2812959-2815562 [Pseudomonas syringae pv. tomato str. DC3000] [TssH]
MIDVDLQQLVKALDAPTRNELEGAAGRCVSRGSSQILVEDMLPGLLERPDGMLMRALSDADVSTAEFAGLILVPVEHSVD
RTPVFAAELVQWFQDALLIATLDLGQSHIDQAALILALLRNPLRYADRPYQPLLAKINIERFRDYVLSRQASGTARQAIH
QSDSLLERFTHNLTQQAREGSLDPVLCRDDCLRQMVDILARRRKNNPIVVGEAGVGKTAIVEGLALRIVRGEVPDLLKDV
ELLSLDMGLLQAGASIKGEFERRLKGVIDEVKSSPGSFILFIDEAHTLIGAGANAGGSDAANILKPALARGELRTIAATT
WAEYRQYFEKDPALARRFQPVRVLEPTVEQAVTILRGLAPLYEQSHGVYLRDDAVVAAARLSARYISGRQLPDKAIDLLD
TACARVQISLVAVPERLEHLRSEMVQQQRHLEAVQRDADAGLSVDDKVLSTLASSVSRIRKEAIVLEDAWLDQRKTARRV
LDLRQQLAHRKIQQNALTTLDSDCQATQALESELAQAQQTILSTQLKDRLVSFEVCPRLVAQVVNAWTGIPLSQLVQEHS
LSIADFSSDLRLRIRGQEQAVQVLERAVKASAAGLNAPNAPTGVFLLVGPSGVGKTETAIALADLLYGGERFLTTINMSE
FQEKHTVSRLIGAPAGYVGYGEGGMLTDAVRQKPYSVILLDEVEKADPEVMNLFYQIFDKGVANDGEGREINFRNTLILM
TSNLGGDLIHASCREGERPDADELAMRIKPLLTAHFKPALLARMRVVPYYPVTGVVLHELIELKLSRLGERLECRGLTFS
YSPDLTRYLLECCTQSDSGARLIDHVLESRVTPLIADRLLSAASSGDSVSRAHATLDASGGIVCEFE*

  Nucleotide sequence: 2604 bp    

>T6CP000339 NC_004578:2812959-2815562 [Pseudomonas syringae pv. tomato str. DC3000] [TssH]
ATGATCGATGTAGACCTGCAGCAACTCGTTAAAGCCCTGGATGCCCCCACACGCAACGAACTCGAGGGGGCCGCAGGGCG
TTGCGTGTCCAGAGGCAGTAGCCAGATTCTCGTTGAGGATATGTTGCCTGGCTTGCTGGAACGACCGGATGGAATGCTGA
TGCGTGCGCTATCGGACGCAGATGTCTCGACTGCCGAATTCGCAGGCCTGATCCTTGTGCCTGTTGAGCATAGCGTCGAC
CGAACCCCGGTATTCGCCGCCGAACTTGTTCAATGGTTTCAGGACGCACTTCTTATTGCCACGCTGGATTTGGGGCAGAG
TCACATTGATCAGGCTGCGCTGATTCTTGCGCTGCTGCGCAACCCGTTGCGTTATGCCGATCGTCCCTACCAGCCACTCC
TGGCGAAAATCAACATTGAACGCTTTCGGGACTATGTGCTTTCCAGGCAGGCATCCGGCACAGCAAGGCAAGCGATACAT
CAATCTGATTCACTGCTCGAACGCTTCACTCATAACCTGACGCAGCAGGCCCGAGAGGGGTCGCTTGATCCGGTGCTGTG
CCGGGACGACTGCCTGCGGCAGATGGTCGACATACTGGCTCGCCGCCGCAAGAACAATCCGATTGTGGTGGGCGAGGCGG
GTGTTGGCAAAACTGCAATTGTCGAAGGGCTGGCGCTGAGAATCGTTCGGGGTGAAGTTCCTGACCTATTGAAAGATGTC
GAACTGTTGTCTCTTGATATGGGCCTGCTCCAGGCAGGTGCCAGTATCAAAGGCGAGTTCGAGCGTCGCTTGAAGGGCGT
CATTGACGAGGTCAAGTCTTCGCCGGGCTCTTTCATTCTGTTCATTGATGAAGCCCACACTCTGATCGGCGCAGGTGCAA
ATGCTGGAGGCTCAGACGCTGCCAACATTTTGAAGCCAGCACTGGCACGTGGCGAACTGCGCACTATCGCGGCAACCACC
TGGGCCGAATATCGACAATACTTTGAGAAGGATCCGGCGCTTGCACGTCGCTTTCAGCCGGTTCGCGTGCTTGAGCCCAC
GGTCGAACAAGCCGTCACCATCCTGCGCGGGCTCGCTCCACTGTATGAACAGAGCCATGGCGTCTATCTACGCGACGATG
CGGTGGTGGCCGCTGCCCGGCTGTCGGCACGCTATATATCCGGTCGGCAGCTGCCAGACAAGGCAATCGATCTGCTTGAT
ACAGCCTGCGCCCGAGTGCAAATCAGTCTGGTCGCGGTGCCTGAGCGCCTTGAGCATCTTCGCAGCGAGATGGTTCAGCA
GCAGAGACACCTTGAGGCCGTGCAGCGTGATGCCGATGCAGGCTTGTCGGTGGATGACAAGGTGTTGAGTACACTGGCAT
CCAGTGTGTCGCGTATCCGCAAGGAAGCCATCGTGCTTGAAGACGCCTGGCTTGATCAGCGAAAAACCGCCAGGCGGGTG
CTTGATCTGCGTCAGCAACTTGCCCACCGAAAAATACAGCAGAACGCTCTGACCACTCTGGACAGTGATTGTCAGGCCAC
CCAGGCGCTGGAGTCCGAATTGGCTCAGGCTCAGCAGACGATCCTCAGCACGCAGCTGAAAGACCGTCTGGTGAGCTTCG
AAGTATGTCCCAGGTTAGTCGCGCAAGTGGTCAATGCCTGGACCGGCATACCGCTGTCGCAGCTGGTCCAGGAACACAGC
CTTTCCATTGCAGATTTTTCGTCTGACCTGCGTCTGCGCATTCGGGGACAGGAGCAGGCTGTGCAGGTTCTTGAAAGGGC
AGTGAAGGCGTCGGCGGCAGGTTTGAATGCGCCGAATGCACCTACTGGCGTGTTCCTTCTGGTGGGTCCCAGTGGCGTGG
GCAAGACCGAAACCGCTATCGCTCTGGCTGATCTTTTATATGGCGGCGAGCGCTTTCTTACGACGATCAATATGTCCGAG
TTTCAGGAAAAGCATACGGTCTCACGCTTGATCGGCGCGCCTGCGGGCTACGTTGGCTATGGCGAGGGAGGCATGTTGAC
CGATGCCGTTCGACAGAAGCCGTACTCGGTGATTCTGCTTGATGAAGTCGAGAAGGCTGACCCGGAAGTAATGAACCTGT
TCTATCAGATATTCGACAAGGGTGTCGCCAACGACGGCGAAGGCCGGGAAATCAACTTCCGCAACACGCTTATTCTGATG
ACTTCCAATCTGGGCGGTGATCTGATCCATGCGAGCTGCCGAGAGGGTGAGCGTCCGGATGCCGACGAGCTGGCTATGAG
AATAAAGCCGCTACTCACCGCGCATTTCAAGCCTGCTTTACTGGCCAGGATGCGAGTAGTGCCTTATTACCCCGTTACGG
GGGTGGTGCTCCATGAATTGATCGAGTTGAAACTGAGCAGGCTTGGGGAAAGGCTCGAATGCCGCGGGCTGACCTTCAGT
TATTCTCCGGATCTGACTCGCTATCTGCTTGAATGCTGCACCCAAAGCGACAGCGGTGCGAGGTTGATTGATCACGTGCT
GGAGTCACGCGTGACGCCGCTCATCGCCGACCGACTGCTGAGTGCCGCGAGCAGCGGTGACAGCGTCTCCAGGGCGCACG
CAACACTTGACGCTTCTGGCGGCATTGTCTGTGAGTTCGAATAA