SecReT6, T6SS database

Detailed information of effector

Summary

Effector ID	EFF00054
Effector type	-
Cognate immunity protein	-
Related T6SS (Type)	T6SS00040 (Type i1)
Strain	Pectobacterium atrosepticum SCRI1043
Replicon	chromosome
Sequence	Protein sequence (173 a.a.); Nucleotide sequence (519 bp)
Description	Hcp
Reference	[1] Mattinen L, Somervuo P, Nykyri J, et al. Microarray profiling of host-extract-induced genes and characterization of the type VI secretion cluster in the potato pathogen Pectobacterium atrosepticum. Microbiology (Reading). 2008 Aug;154(Pt 8):2387-2396. doi: 10.1099/mic.0.2008/017582-0. PMID: 18667571

Experimental investigation has been performed.

Bioinformatics investigation has been performed

External database links

Locus tag (Gene)	ECA_RS16905
Coordinates (Strand)	3841279..3841797 (-)
NCBI ID	50122352
RefSeq	NC_004547
Uniprot ID	UPI00003B8CA7
KEGG ID	-
PDB ID	-

Pfam domain hit(s)

Domain	Pfam ID	E-value	Aligned region
T6SS_HCP	PF05638.14	6.6e-32	7..155

Transmembrane helices

Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction	Region	Sequence
Outside	1-172	MPTPCYISIEGKTQGNITAGAFTSDSVGNIYVEGHEDEMLVQEFKHVVTVPTDPQSGQPSGQRVHKPFKFTVALNKAVPLLYNALSTGEMLPTTTLKWYRTSVEGKQEHFFSTILTDATIVDIDCKMPHCQDPSKLDYTQLIEVSLAYRKIDWEHTVAGTSGSDDWRTPVEA

Signal peptides

Signal peptides and corresponding cleavage sites are predicted using SignalP 5.0 software.

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	0.9705	-	-

Protein sequence: 173 a.a. .

                                    >EFF00054 NC_004547:c3841797-3841279  (Unknown) [Pectobacterium atrosepticum SCRI1043]
MPTPCYISIEGKTQGNITAGAFTSDSVGNIYVEGHEDEMLVQEFKHVVTVPTDPQSGQPSGQRVHKPFKFTVALNKAVPL
LYNALSTGEMLPTTTLKWYRTSVEGKQEHFFSTILTDATIVDIDCKMPHCQDPSKLDYTQLIEVSLAYRKIDWEHTVAGT
SGSDDWRTPVEA*

                                

Nucleotide sequence: 519 bp .

                                    >EFF00054 NC_004547:c3841797-3841279  (Unknown) [Pectobacterium atrosepticum SCRI1043]
ATGCCAACTCCATGCTATATCAGCATCGAAGGGAAAACTCAGGGCAACATCACCGCCGGTGCCTTCACGTCTGATTCTGT
CGGCAACATCTATGTCGAAGGCCACGAAGACGAAATGCTGGTGCAGGAATTCAAACACGTGGTTACCGTGCCGACCGACC
CGCAGTCTGGTCAGCCGTCCGGCCAACGCGTGCACAAGCCGTTTAAATTCACCGTCGCGCTGAACAAAGCTGTTCCACTG
CTGTACAACGCACTGTCTACCGGTGAAATGCTGCCAACTACGACCCTGAAGTGGTATCGCACCTCGGTGGAAGGCAAGCA
GGAGCACTTCTTCTCTACCATCCTTACCGATGCCACCATCGTGGATATCGACTGCAAAATGCCACACTGCCAGGACCCGT
CCAAACTGGATTACACCCAACTGATTGAAGTGTCGCTGGCTTACCGCAAAATCGACTGGGAACACACGGTTGCAGGGACT
TCTGGCTCTGATGACTGGCGTACGCCGGTCGAAGCGTAA

                                