Detailed information of component protein


Summary

Component ID T6CP000119
Component protein type TssC
T6SS ID (Type) T6SS00016 experimental (Type i5)
Strain Agrobacterium fabrum str. C58
Replicon chromosome linear
Sequence Protein sequence (465 a.a.); Nucleotide sequence (1395 bp)
Reference
[1] Ma LS, Narberhaus F, Lai EM. IcmF family protein TssM exhibits ATPase activity and energizes type VI secretion. J Biol Chem. 2012 May 4;287(19):15610-21. doi: 10.1074/jbc.M111.301630. Epub 2012 Mar 5. PMID: 22393043
[2] Wu HY, Chung PC, Shih HW, et al. Secretome analysis uncovers an Hcp-family protein secreted via a type VI secretion system in Agrobacterium tumefaciens. J Bacteriol. 2008 Apr;190(8):2841-50. doi: 10.1128/JB.01775-07. Epub 2008 Feb 8. PMID: 18263727
[3] Wu CF, Lin JS, Shaw GC, et al. Acid-induced type VI secretion system is regulated by ExoR-ChvG/ChvI signaling cascade in Agrobacterium tumefaciens. PLoS Pathog. 2012 Sep;8(9):e1002938. doi: 10.1371/journal.ppat.1002938. Epub 2012 Sep 27. PMID: 23028331
[4] Lin JS, Ma LS, Lai EM. Systematic dissection of the agrobacterium type VI secretion system reveals machinery and secreted components for subcomplex formation. PLoS One. 2013 Jul 5;8(7):e67647. doi: 10.1371/journal.pone.0067647. Print 2013. PMID: 23861778
[5] Ma LS, Hachani A, Lin JS, et al. Agrobacterium tumefaciens deploys a superfamily of type VI secretion DNase effectors as weapons for interbacterial competition in planta. Cell Host Microbe. 2014 Jul 9;16(1):94-104. doi: 10.1016/j.chom.2014.06.002. Epub 2014 Jun 26. PMID: 24981331
[6] Heckel BC, Tomlinson AD, Morton ER, et al. Agrobacterium tumefaciens exoR controls acid response genes and impacts exopolysaccharide synthesis, horizontal gene transfer, and virulence gene expression. J Bacteriol. 2014 Sep;196(18):3221-33. doi: 10.1128/JB.01751-14. Epub 2014 Jun 30. PMID: 24982308
[7] Lin JS, Wu HH, Hsu PH, et al. Fha interaction with phosphothreonine of TssL activates type VI secretion in Agrobacterium tumefaciens. PLoS Pathog. 2014 Mar 13;10(3):e1003991. doi: 10.1371/journal.ppat.1003991. eCollection 2014 Mar. PMID: 24626341
[8] Heckel BC, Tomlinson AD, Morton ER, et al. Agrobacterium tumefaciens exoR controls acid response genes and impacts exopolysaccharide synthesis, horizontal gene transfer, and virulence gene expression. J Bacteriol. 2014 Sep;196(18):3221-33. doi: 10.1128/JB.01751-14. Epub 2014 Jun 30. PMID: 24982308
[9] Ma LS, Lin JS, Lai EM. An IcmF family protein, ImpLM, is an integral inner membrane protein interacting with ImpKL, and its walker a motif is required for type VI secretion system-mediated Hcp secretion in Agrobacterium tumefaciens. J Bacteriol. 2009 Jul;191(13):4316-29. doi: 10.1128/JB.00029-09. Epub 2009 Apr 24. PMID: 19395482
experimental Experimental investigation has been performed on this T6SS

External database links

Locus tag (Gene) ATU_RS20325
Coordinate (Strand) 1472385..1473779 (-)
NCBI ID WP_006315896.1
RefSeq NC_003063
Uniprot ID A0A083ZIC7_RHIRD, A0A7I0RMA4_9RHIZ, A9CGG4_AGRFC
KEGG ID atu:Atu4340
PDB ID -

Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
VipB PF05943.14 6.5e-104 14..325
VipB_2 PF18945.2 2.3e-40 335..444

Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-464 MAHQSFPDARIFADQLIALIDEALTGQVNAILHHPDFQAMEGRWRGLAMVVREAGRSTDVKVKLLNASWRDLARNTERATDFDQSHLFEVVYNREFGMPGGEPVGLMIGDYAFSPDDLQGADSITTLSQIGMVAAAAFCPFVAAAAPSAVGLQDFSELSRVHDFSSLKQEKSRLRWNALRARDDSRFVGLVAPRVLLRSPYRPYARGRDDGFPFREHVAESGETLLWGNAAFAFATVVVRNFVDSGWFADLRGVTQDAVDGGMLSPRQLPPFDLGIESNGLSAQPPVEVQLTTGQEQQFSDLGIVPVSTTYLSGMAIFNANQSLHAPGHYSTEAARQNARLAAMLQYVLCASRFSHYLKVIMRDDIGQLSDATTIERKLESWLSSYTLGNDDAEASLRTRYPLRSAGINVFEVPGKPGTFSCTVRLQPHFQLDDVSTSFHLIAETMMPPAAASRSSAEPQRISA



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 0.9968 - -



  Protein sequence: 465 a.a.    

>T6CP000119 NC_003063:c1473779-1472385 [Agrobacterium fabrum str. C58] [TssC]
MAHQSFPDARIFADQLIALIDEALTGQVNAILHHPDFQAMEGRWRGLAMVVREAGRSTDVKVKLLNASWRDLARNTERAT
DFDQSHLFEVVYNREFGMPGGEPVGLMIGDYAFSPDDLQGADSITTLSQIGMVAAAAFCPFVAAAAPSAVGLQDFSELSR
VHDFSSLKQEKSRLRWNALRARDDSRFVGLVAPRVLLRSPYRPYARGRDDGFPFREHVAESGETLLWGNAAFAFATVVVR
NFVDSGWFADLRGVTQDAVDGGMLSPRQLPPFDLGIESNGLSAQPPVEVQLTTGQEQQFSDLGIVPVSTTYLSGMAIFNA
NQSLHAPGHYSTEAARQNARLAAMLQYVLCASRFSHYLKVIMRDDIGQLSDATTIERKLESWLSSYTLGNDDAEASLRTR
YPLRSAGINVFEVPGKPGTFSCTVRLQPHFQLDDVSTSFHLIAETMMPPAAASRSSAEPQRISA*

  Nucleotide sequence: 1395 bp    

>T6CP000119 NC_003063:c1473779-1472385 [Agrobacterium fabrum str. C58] [TssC]
ATGGCGCATCAGTCCTTTCCGGACGCCCGCATTTTCGCCGACCAGCTCATCGCCCTCATCGATGAGGCGCTGACCGGCCA
GGTGAACGCCATTCTCCACCATCCCGATTTTCAGGCGATGGAGGGGAGATGGCGCGGGCTCGCCATGGTCGTGCGCGAAG
CGGGCCGCAGCACCGACGTGAAGGTGAAACTGCTGAACGCCAGCTGGCGCGACCTTGCCCGGAACACGGAACGCGCCACC
GACTTCGACCAGAGCCATCTTTTCGAAGTCGTCTATAACCGCGAATTCGGCATGCCCGGCGGCGAACCGGTGGGCTTGAT
GATCGGTGACTACGCCTTTTCTCCCGATGATCTTCAGGGTGCAGATTCCATCACCACGCTGTCGCAGATCGGCATGGTGG
CCGCTGCGGCCTTCTGCCCCTTCGTGGCGGCAGCCGCACCTTCCGCCGTCGGCCTGCAGGATTTTTCCGAACTCAGCCGG
GTTCATGACTTTTCCTCGCTGAAGCAGGAGAAATCTCGGCTTCGCTGGAATGCGCTTCGCGCCCGCGATGATTCTCGCTT
CGTCGGCCTTGTCGCGCCGCGTGTTTTGCTGCGCTCTCCCTACAGGCCCTATGCGCGTGGACGCGATGACGGGTTTCCAT
TCCGCGAACATGTGGCGGAAAGCGGCGAGACACTGCTCTGGGGTAATGCCGCCTTCGCCTTTGCGACCGTGGTCGTGCGC
AACTTCGTCGATTCCGGCTGGTTTGCGGATCTGCGCGGTGTGACGCAGGATGCGGTGGATGGCGGCATGCTCTCGCCCCG
GCAATTGCCGCCGTTCGATCTCGGCATCGAGAGCAACGGTCTTTCCGCCCAGCCGCCCGTCGAGGTGCAACTGACGACGG
GACAGGAACAGCAGTTTTCCGATCTCGGCATCGTGCCCGTCTCCACCACCTATCTTTCCGGCATGGCAATCTTCAACGCC
AACCAGTCCCTGCATGCACCCGGCCATTATTCCACCGAAGCGGCGAGGCAGAACGCCCGCCTTGCCGCGATGCTGCAATA
TGTGCTGTGCGCCTCCCGGTTCTCGCATTATCTCAAGGTCATCATGCGTGATGACATCGGCCAGCTGAGCGATGCCACGA
CGATCGAGCGCAAGCTGGAAAGCTGGCTCTCTTCCTACACGCTCGGCAATGACGATGCGGAAGCGTCGTTGCGCACGCGC
TATCCGCTGCGCTCTGCCGGGATCAATGTCTTCGAGGTTCCCGGCAAGCCGGGGACATTCTCCTGCACCGTGCGCCTCCA
GCCGCATTTCCAGCTCGATGACGTCTCCACGAGCTTCCACCTCATTGCCGAAACCATGATGCCGCCCGCCGCCGCATCCC
GGTCTTCGGCCGAGCCGCAAAGGATATCCGCATGA