StrainAgrobacterium tumefaciens str. C58
Repliconplasmid Ti [Browse all T4SS(s) in this replicon]
Functioneffector translocation and conjugation
ClassificationType IVA; Type P
experimental Experimental investigation has been performed on this T4SS.
structure Information of structure: structureVirB8

T4SS components

The information of T4SS components from NC_003065
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProductComponent
1Atu6164 (tzs)179262..179993 [-], 73241223351trans-zeatin secretion protein 
2Atu6165180279..180470 [+], 192159161997hypothetical protein 
3Atu6166 (virA)180831..183332 [+], 250216119781two-component VirA-like sensor kinase 
4Atu6167 (virB1)183877..184614 [+], 73841223307type IV secretion system lytic transglycosylase VirB1  VirB1
5Atu6168 (virB2)184614..184979 [+], 36616119783type IV secretion system pilin subunit VirB2  VirB2
6Atu6169 (virB3)184979..185305 [+], 32716119784type IV secretion system protein VirB3  VirB3
7Atu6170 (virB4)185305..187674 [+], 237016119786type IV secretion system protein VirB4  VirB4
8Atu6171 (virB5)187691..188353 [+], 66316119787type IV secretion system protein VirB5  VirB5
9Atu6172 (virB6)188454..189341 [+], 88841223308type IV secretion system protein VirB6  VirB6
10Atu6173 (virB7)189377..189544 [+], 168159161998type IV secretion system lipoprotein VirB7  VirB7
11Atu6174 (virB8)189531..190244 [+], 71441223309type IV secretion system protein VirB8  VirB8
12Atu6175 (virB9)190241..191122 [+], 88216119791type IV secretion system protein VirB9  VirB9
13Atu6176 (virB10)191119..192252 [+], 113416119792type IV secretion system protein VirB10  VirB10
14Atu6177 (virB11)192293..193327 [+], 103541223310type IV secretion system protein VirB11  VirB11
15Atu6178 (virG)193546..194307 [+], 76216119794two-component response regulator VirG 
16Atu6179 (virC2)194449..195057 [-], 609159161999putative crown gall tumor protein VirC2 
17Atu6180 (virC1)195060..195755 [-], 69616119796putative crown gall tumor protein VirC1  accesspry protein
18Atu6181 (virD1)196026..196469 [+], 44441223311type IV secretion system T-DNA border endonuclease VirD1 
19Atu6182 (virD2)196503..197846 [+], 134416119798type IV secretion system T-DNA border endonuclease VirD2 
20Atu6183 (virD3)197861..199882 [+], 2022159162000virA/G regulated protein 
21Atu6184 (virD4)199956..201962 [+], 200741223312type IV secretion system protein VirD4  VirD4
22Atu6185 (virD5)202074..204596 [+], 252316119801virA/G regulated protein 
23Atu6186 (virE3)204666..205232 [+], 567159162001virA/G regulated protein 
24Atu6188 (virE0)205684..205935 [+], 252159162002virA/G regulated protein 
25Atu6189 (virE1)206051..206242 [+], 19216119804type IV secretion system chaperone VirE1  accesspry protein
accesspry protein This T4SS contains information of accessory protein.
flank Genes in the 5-Kb flanking regions if available, or non-essential genes in the T4SS gene cluster if any.

Download FASTA format files
Proteins        Genes
This system delivers both oncogenic DNA and proteins into plant cells. The transferred DNA (T-DNA, NC_003065 REGION: 1..24836) is processed by VirD1, VirD2, and VirC1 (Dtr proteins) and covalently bound to VirD2 to form a VirD2-T-strand transfer intermediate. The T-DNA complex is then transferred by this system into target cells. In addition, the T4SS independently translocates four additional effector proteins: VirE2, VirE3, VirF and VirD5.

VirD2, VirD5, VirE2, VirE3, VirF

The information of protein effectors
#Locus tag (Gene)Coordinates [+/-], size (bp)Protein GIProduct  *
1Atu6182 (virD2)196503..197846 [+], 134416119798type IV secretion system T-DNA border endonuclease VirD2experimental  VirD2
2Atu6185 (virD5)202074..204596 [+], 252316119801virA/G regulated proteinexperimental  VirD5
3Atu6190 (virE2)206256..207926 [+], 167116119805type IV secretion system single-stranded DNA binding protein VirE2experimental  VirE2
4Atu6191 (virE3)207993..210047 [+], 205516119806virA/G regulated proteinexperimental  VirE3
5Atu6154 (virF)172489..173427 [+], 93916119971exported virulence proteinexperimental  VirF
experimental T4SE derived from experimental literature.

Download FASTA format files
Proteins        Genes
The information on structure of this T4ss

1VirB82CC3 PDB (2CC3)Structure of Agrobacterium tumefaciens VirB8 protein(1) PubMed: 16481621
(1) Bailey S; Ward D; Middleton R; Grossmann JG; Zambryski PC (2006). Agrobacterium tumefaciens VirB8 structure reveals potential protein-protein interaction sites. Proc Natl Acad Sci U S A. 103(8):2582-7. [PudMed:16481621] experimental
The information on requirements for T4SS substrate-channel docking

Certain T4SS substrates require secretion chaperones for translocation. These chaperones often possess physical properties (small size of 15 kDa, acidic pI, and amphipathic helices) resembling those of chaperones associated with the type III secretion systems, a family of macromolecular translocation systems ancestrally related to bacterial flagella.

#Accessory protein(GI)motif(s)Substrate(s)FunctionReference
1VirC1 (16119796)NDVirD2VirC1 pairwise interacts with the processing factors VirD2 relaxase, VirC2, and VirD1 to stimulate generation of multiple copies per cell of the T-DNA substrate. VirC1 promotes conjugative T-DNA transfer.(1) PubMed: 17505518
2VirE1 chaperone (16119804)CT50aa sufficient (interacts with the VirD4 T4CP. CT100aa(VirE2) sufficient for the T4CP interation)VirE2Translocation of the VirE2 effector through the A. tumefaciens VirB/VirD4 T4SS requires VirE1.(2) PubMed: 19946141
1.Substrate(s): For the conjugation systems, the listed proteins are relaxases that bind a cognate T4CP and are delivered to recipient cells. For the effector translocator systems, the listed proteins are effectors that play a role in the infection processes of the bacterial pathogen.
2.motif(s):The motifs listed are required for substrate translocation. In some cases, the protein or its C-terminal fragment (CT) is sufficient to mediate translocation to target cells, as shown by fusion to a reporter protein such as Cre recombinase or adenylate cyclase. Amino acids (aa) at positions listed relative to the C-terminal fragment (subscript) are required for translocation, as shown by mutational analysis. ND, not determined. Parentheses indicate that the interaction between a protein substrate and a cognate T4CP has been experimentally shown.
3.Accessory protein: Accessory factors required for T4SS channel docking or translocation. The proposed function in mediating substrate-T4SS channel docking is shown in parentheses.PubMed:19946141

(1) Atmakuri K; Cascales E; Burton OT; Banta LM; Christie PJ (2007). Agrobacterium ParA/MinD-like VirC1 spatially coordinates early conjugative DNA transfer reactions. EMBO J. 26(10):2540-51. [PudMed:17505518] experimental
(2) Alvarez-Martinez CE; Christie PJ (2009). Biological diversity of prokaryotic type IV secretion systems. Microbiol Mol Biol Rev. 73(4):775-808. [PudMed:19946141]
(1) Aguilar J; Cameron TA; Zupan J; Zambryski P (2011). Membrane and core periplasmic Agrobacterium tumefaciens virulence Type IV secretion system components localize to multiple sites around the bacterial perimeter during lateral attachment to plant cells. MBio. 2(6):e00218-11. [PudMed:22027007] experimental
(2) Sivanesan D; Baron C (2011). The dimer interface of Agrobacterium tumefaciens VirB8 is important for type IV secretion system function, stability, and association of VirB2 with the core complex. J Bacteriol. 193(9):2097-106. [PudMed:21398549] experimental
(3) Mossey P; Hudacek A; Das A (2010). Agrobacterium tumefaciens type IV secretion protein VirB3 is an inner membrane protein and requires VirB4, VirB7, and VirB8 for stabilization. J Bacteriol. 192(11):2830-8. [PudMed:20348257] experimental
(4) Aguilar J; Zupan J; Cameron TA; Zambryski PC (2010). Agrobacterium type IV secretion system and its substrates form helical arrays around the circumference of virulence-induced cells. Proc Natl Acad Sci U S A. 107(8):3758-63. [PudMed:20133577] experimental
(5) Zupan J; Hackworth CA; Aguilar J; Ward D; Zambryski P (2007). VirB1* promotes T-pilus formation in the vir-Type IV secretion system of Agrobacterium tumefaciens. J Bacteriol. 189(18):6551-63. [PudMed:17631630] experimental
(6) Draper O; Middleton R; Doucleff M; Zambryski PC (2006). Topology of the VirB4 C terminus in the Agrobacterium tumefaciens VirB/D4 type IV secretion system. J Biol Chem. 281(49):37628-35. [PudMed:17038312] experimental
(7) Wessel M; Klusener S; Godeke J; Fritz C; Hacker S; Narberhaus F (2006). Virulence of Agrobacterium tumefaciens requires phosphatidylcholine in the bacterial membrane. Mol Microbiol. 62(3):906-15. [PudMed:17010159] experimental
(8) McCullen CA; Binns AN (2006). Agrobacterium tumefaciens and plant cell interactions and activities required for interkingdom macromolecular transfer. Annu Rev Cell Dev Biol. 22:101-27. [PudMed:16709150]
(9) Bailey S; Ward D; Middleton R; Grossmann JG; Zambryski PC (2006). Agrobacterium tumefaciens VirB8 structure reveals potential protein-protein interaction sites. Proc Natl Acad Sci U S A. 103(8):2582-7. [PudMed:16481621] experimental
(10) Middleton R; Sjolander K; Krishnamurthy N; Foley J; Zambryski P (2005). Predicted hexameric structure of the Agrobacterium VirB4 C terminus suggests VirB4 acts as a docking site during type IV secretion. Proc Natl Acad Sci U S A. 102(5):1685-90. [PudMed:15668378] in_silico
(11) Ward DV; Draper O; Zupan JR; Zambryski PC (2002). Peptide linkage mapping of the Agrobacterium tumefaciens vir-encoded type IV secretion system reveals protein subassemblies. Proc Natl Acad Sci U S A. 99(17):11493-500. [PudMed:12177441] experimental
(12) Hapfelmeier S; Domke N; Zambryski PC; Baron C (2000). VirB6 is required for stabilization of VirB5 and VirB3 and formation of VirB7 homodimers in Agrobacterium tumefaciens. J Bacteriol. 182(16):4505-11. [PudMed:10913084] experimental
experimental This literature contains experimental investigation
in_silico This literature contains bioinformatics investigation