Detailed information of component protein


Summary

Component ID T6CP000331
Component protein type TssF
T6SS ID (Type) T6SS00040 experimental (Type i1)
Strain Pectobacterium atrosepticum SCRI1043
Replicon chromosome
Sequence Protein sequence (589 a.a.); Nucleotide sequence (1767 bp)
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
[2] Mattinen L, Nissinen R, Riipi T, et al. Host-extract induced changes in the secretome of the plant pathogenic bacterium Pectobacterium atrosepticum. Proteomics. 2007 Oct;7(19):3527-37. PMID: 17726675
[3] Liu H, Coulthurst SJ, Pritchard L, et al. Quorum sensing coordinates brute force and stealth modes of infection in the plant pathogen Pectobacterium atrosepticum. PLoS Pathog. 2008 Jun 20;4(6):e1000093. doi: 10.1371/journal.ppat.1000093. PMID: 18566662
[4] 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
[5] Bernard CS, Brunet YR, Gavioli M, et al. Regulation of type VI secretion gene clusters by sigma54 and cognate enhancer binding proteins. J Bacteriol. 2011 May;193(9):2158-67. doi: 10.1128/JB.00029-11. Epub 2011 Mar 4. PMID: 21378190
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) ECA_RS16975
Coordinate (Strand) 3859750..3861516 (-)
NCBI ID WP_011094950.1
RefSeq NC_004547
Uniprot ID Q6D1K4_PECAS
KEGG ID eca:ECA3442
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_TssF PF05947.14 1.4e-152 3..584
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-588 MSLEHFFRDELTYLRLQGREFAKAHPELTRFLSEQTTDPDVERLLEGFAFLTGSLRAKIEDEFPELTHGLLGMLWPNYLRPVPSMTIMQFSVHPGAIAQPAFVARGCELDSLPIDDVVCHFQTCHDAWIYPADIREIKVQSGNDLSTITLDIGLHGPLSLSDLQLDKLRFYLGGDTYTAYELYFWIASQLSHIELEVDGQRFRQEASVLKTVGFEREDALLPYPGNVYSGYRILQEYFCFPESFLFFQLAGAVWPDLPLTVTEFRLHFCFDRPLPAELKIRPDSFMFNCVPAINLFQHDSEPINLSGRQTDYPLKASYRNADSFEIFSVDKVEGWVEGNSGRSRGIPRTYQPFESFQHQIERAKGRLALYYRIRVREAINGNGFDHMLSFVRGDEQEVIDLDESISVTLTCTNRSRAAQLSVGAICVPTGNSPSFATFRNLVRPTRPLRPAMDGSLHWTLISNLSLNYVSLLRRDALVQILRTYDFPALHDKQAEQASRKRLAGIESIETTPIDRLVQGMPVRGLKSILSVRQSAFSSEGELYLFSTVLAHFFSLYASVNAFHLLEVVNIDNKERYRWPVQIGQHSMM


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 0.9879 - -


  Protein sequence: 589 a.a.    

>T6CP000331 NC_004547:c3861516-3859750 [Pectobacterium atrosepticum SCRI1043] [TssF]
MSLEHFFRDELTYLRLQGREFAKAHPELTRFLSEQTTDPDVERLLEGFAFLTGSLRAKIEDEFPELTHGLLGMLWPNYLR
PVPSMTIMQFSVHPGAIAQPAFVARGCELDSLPIDDVVCHFQTCHDAWIYPADIREIKVQSGNDLSTITLDIGLHGPLSL
SDLQLDKLRFYLGGDTYTAYELYFWIASQLSHIELEVDGQRFRQEASVLKTVGFEREDALLPYPGNVYSGYRILQEYFCF
PESFLFFQLAGAVWPDLPLTVTEFRLHFCFDRPLPAELKIRPDSFMFNCVPAINLFQHDSEPINLSGRQTDYPLKASYRN
ADSFEIFSVDKVEGWVEGNSGRSRGIPRTYQPFESFQHQIERAKGRLALYYRIRVREAINGNGFDHMLSFVRGDEQEVID
LDESISVTLTCTNRSRAAQLSVGAICVPTGNSPSFATFRNLVRPTRPLRPAMDGSLHWTLISNLSLNYVSLLRRDALVQI
LRTYDFPALHDKQAEQASRKRLAGIESIETTPIDRLVQGMPVRGLKSILSVRQSAFSSEGELYLFSTVLAHFFSLYASVN
AFHLLEVVNIDNKERYRWPVQIGQHSMM*

  Nucleotide sequence: 1767 bp    

>T6CP000331 NC_004547:c3861516-3859750 [Pectobacterium atrosepticum SCRI1043] [TssF]
ATGTCACTGGAACATTTTTTCAGGGATGAGCTGACCTACTTGCGCCTGCAAGGGCGTGAATTCGCCAAGGCGCACCCTGA
GCTTACCCGATTTTTGTCAGAACAAACTACGGATCCAGACGTCGAACGTCTGCTGGAAGGGTTCGCCTTTTTGACAGGGA
GCCTGCGGGCGAAGATCGAGGATGAATTTCCGGAACTGACACATGGTCTGCTAGGCATGCTGTGGCCTAATTACCTGCGC
CCCGTACCAAGCATGACAATTATGCAGTTTTCGGTACACCCCGGTGCGATTGCCCAACCTGCGTTTGTGGCGCGAGGCTG
TGAGCTTGATAGCCTGCCGATTGACGATGTAGTTTGCCATTTTCAGACCTGCCACGATGCCTGGATTTATCCGGCAGATA
TCCGCGAGATCAAGGTACAAAGCGGCAACGATCTTTCCACTATTACTCTGGATATTGGGCTGCATGGCCCGCTATCACTC
AGCGATCTGCAACTCGACAAACTGCGCTTTTATCTGGGCGGTGATACCTATACCGCCTACGAGCTCTATTTCTGGATCGC
TAGCCAACTGTCGCATATTGAGCTGGAAGTTGATGGCCAACGTTTCCGTCAGGAAGCTAGCGTGCTGAAGACGGTCGGCT
TTGAGCGTGAAGATGCCCTGTTGCCGTATCCCGGCAATGTCTATTCGGGCTACCGCATTTTGCAGGAATACTTTTGTTTT
CCTGAAAGTTTTCTCTTTTTCCAACTTGCTGGCGCGGTATGGCCTGATCTCCCGCTAACGGTAACGGAATTTCGTCTGCA
TTTTTGCTTTGATCGCCCGTTGCCAGCGGAACTGAAGATCCGCCCTGATTCGTTCATGTTCAACTGCGTGCCTGCAATTA
ATCTCTTCCAGCATGATAGCGAACCGATCAACCTCAGCGGACGCCAGACCGATTACCCGCTGAAAGCCAGCTACCGTAAC
GCTGATAGCTTTGAAATTTTCTCTGTGGATAAGGTTGAAGGCTGGGTTGAAGGGAATTCAGGTCGTTCTCGGGGAATTCC
ACGCACGTATCAGCCTTTTGAGAGCTTTCAGCACCAAATTGAGCGAGCCAAAGGACGGCTGGCGCTCTATTACCGCATCC
GGGTAAGAGAAGCCATCAATGGTAACGGTTTTGATCATATGCTCTCTTTTGTGCGCGGTGATGAGCAAGAAGTGATTGAT
TTAGATGAATCCATCTCGGTAACCCTGACTTGCACCAATCGATCGCGTGCGGCGCAGCTGTCCGTTGGGGCGATCTGCGT
GCCAACCGGGAATTCACCGTCTTTCGCAACGTTTCGTAATTTGGTTCGCCCGACGCGGCCGCTGCGGCCAGCGATGGATG
GCAGCCTGCATTGGACGCTGATCTCCAACCTGTCCTTGAACTACGTGTCGTTGCTGCGGCGTGATGCGTTGGTACAGATT
CTGCGTACCTACGATTTCCCCGCGCTGCACGATAAGCAGGCAGAGCAAGCCTCGCGTAAGCGTCTGGCGGGTATCGAGTC
TATCGAAACCACCCCTATCGATCGTCTGGTTCAGGGCATGCCGGTGCGCGGCTTGAAATCAATCCTGTCGGTACGGCAAT
CCGCGTTTTCCAGTGAAGGAGAACTCTATCTGTTTAGTACGGTGCTGGCGCACTTTTTCTCGCTATACGCCAGCGTTAAC
GCTTTCCACCTGTTGGAAGTGGTCAACATCGATAACAAGGAGCGCTACCGATGGCCGGTACAGATAGGTCAACACTCAAT
GATGTGA