Detailed information of effector


Summary

Effector ID EFF01856 experimental
Effector type -
Cognate immunity protein -
Related T6SS (Type) T6SS01242 experimental (Type i5)
Strain Agrobacterium tumefaciens strain 1D1108
Replicon chromosome
Sequence Protein sequence (159 a.a.); Nucleotide sequence (477 bp)
Description Hcp and Tae were detected in the media fraction of each strain while Hcp was not detected in the media fractions of any of the ΔtssL mutants but could be detected in the media fractions of mutant strains complemented with their cognate tssL gene
Reference
[1] Wu CF, Santos MNM, Cho ST, et al. Plant-Pathogenic Agrobacterium tumefaciens Strains Have Diverse Type VI Effector-Immunity Pairs and Vary in In-Planta Competitiveness. Mol Plant Microbe Interact. 2019 Aug;32(8):961-971. doi: 10.1094/MPMI-01-19-0021-R. Epub 2019 Jun 27. PMID: 30830835
[2] Wu CF, Santos MNM, Cho ST, et al. Plant-Pathogenic Agrobacterium tumefaciens Strains Have Diverse Type VI Effector-Immunity Pairs and Vary in In-Planta Competitiveness. Mol Plant Microbe Interact. 2019 Aug;32(8):961-971. doi: 10.1094/MPMI-01-19-0021-R. Epub 2019 Jun 27. PMID: 30830835
[3] Wu CF, Santos MNM, Cho ST, et al. Plant-Pathogenic Agrobacterium tumefaciens Strains Have Diverse Type VI Effector-Immunity Pairs and Vary in In-Planta Competitiveness. Mol Plant Microbe Interact. 2019 Aug;32(8):961-971. doi: 10.1094/MPMI-01-19-0021-R. Epub 2019 Jun 27. PMID: 30830835
experimental Experimental investigation has been performed.
insolico Bioinformatics investigation has been performed
External database links

Locus tag (Gene) At1D1108_RS23235 (hcp)
Coordinates (Strand) 2063637..2064113 (+)
NCBI ID 490566468
RefSeq NZ_CP032922
Uniprot ID H0HC48_RHIRD, F0LDA4_AGRFH, A0A1S7T4D8_AGRFH, A0A1S7NC93_AGRFH, A0A1B9UXR2_RHIRD
KEGG ID atf:Ach5_45120, agr:AGROH133_09373
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_HCP PF05638.14 8.4e-33 4..133
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-158 MPIYLQIDGIQGDATHEEHRKWMDIEAIHWNVARNMNTSAGSAANREASEPTISEVILTKVSDSSSTKLFQEACAGRTGKLATIHLVTTGNPGNTYIEYLLTNTLIASYSVDSSGDRPVETVKLNFTKMEVKYTPFDDNNSPQSPMIASYDLATTKAA


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 0.9890 - -


  Protein sequence: 159 a.a.    .

>EFF01856 NZ_CP032922:2063637-2064113 (Unknown) [Agrobacterium tumefaciens]
MPIYLQIDGIQGDATHEEHRKWMDIEAIHWNVARNMNTSAGSAANREASEPTISEVILTKVSDSSSTKLFQEACAGRTGK
LATIHLVTTGNPGNTYIEYLLTNTLIASYSVDSSGDRPVETVKLNFTKMEVKYTPFDDNNSPQSPMIASYDLATTKAA*

  Nucleotide sequence: 477 bp    .

>EFF01856 NZ_CP032922:2063637-2064113 (Unknown) [Agrobacterium tumefaciens]
ATGCCAATTTATCTGCAGATTGACGGTATCCAGGGCGACGCCACCCATGAAGAACATCGCAAGTGGATGGATATTGAAGC
CATTCACTGGAACGTGGCCCGCAACATGAATACCTCTGCTGGTTCTGCTGCAAACCGCGAGGCATCCGAACCGACCATTT
CGGAAGTCATTCTGACCAAGGTTAGCGATTCTTCTTCCACCAAGCTTTTCCAGGAAGCCTGCGCCGGCCGGACCGGCAAG
CTCGCAACCATTCATCTGGTGACCACGGGTAATCCCGGCAACACCTATATCGAGTATCTGCTGACAAACACGCTTATCGC
CAGCTACTCGGTGGATTCCAGCGGTGACCGTCCGGTGGAAACCGTCAAGCTCAACTTCACGAAGATGGAAGTGAAGTACA
CGCCGTTCGACGACAACAACTCGCCGCAGTCTCCGATGATCGCCTCCTACGATCTGGCGACGACGAAGGCTGCCTGA