Annotations: 8RT4

O-layer structure (TrwH/VirB7, TrwF/VirB9CTD, TrwE/VirB10CTD) of the outer membrane core complex from the fully-assembled R388 type IV secretion system determined by cryo-EM.

External Resource: Annotation

Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
X	CoV_Methyltr_2	e8rt4X1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
U	CoV_Methyltr_2	e8rt4U1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
R	CoV_Methyltr_2	e8rt4R1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
PA [auth p]	CoV_Methyltr_2	e8rt4p1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
O	CoV_Methyltr_2	e8rt4O1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
MA [auth m]	CoV_Methyltr_2	e8rt4m1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
L	CoV_Methyltr_2	e8rt4L1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
JA [auth j]	CoV_Methyltr_2	e8rt4j1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
I	CoV_Methyltr_2	e8rt4I1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
GA [auth g]	CoV_Methyltr_2	e8rt4g1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
F	CoV_Methyltr_2	e8rt4F1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
DA [auth d]	CoV_Methyltr_2	e8rt4d1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
C	CoV_Methyltr_2	e8rt4C1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
AA [auth a]	CoV_Methyltr_2	e8rt4a1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
Z	CoV_Methyltr_2	e8rt4Z1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
W	CoV_Methyltr_2	e8rt4W1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
T	CoV_Methyltr_2	e8rt4T1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
Q	CoV_Methyltr_2	e8rt4Q1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
OA [auth o]	CoV_Methyltr_2	e8rt4o1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
N	CoV_Methyltr_2	e8rt4N1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
LA [auth l]	CoV_Methyltr_2	e8rt4l1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
K	CoV_Methyltr_2	e8rt4K1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
IA [auth i]	CoV_Methyltr_2	e8rt4i1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
H	CoV_Methyltr_2	e8rt4H1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
FA [auth f]	CoV_Methyltr_2	e8rt4f1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
E	CoV_Methyltr_2	e8rt4E1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
CA [auth c]	CoV_Methyltr_2	e8rt4c1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
B	CoV_Methyltr_2	e8rt4B1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
Y	CoV_Methyltr_2	e8rt4Y1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
V	CoV_Methyltr_2	e8rt4V1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
S	CoV_Methyltr_2	e8rt4S1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
P	CoV_Methyltr_2	e8rt4P1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
NA [auth n]	CoV_Methyltr_2	e8rt4n1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
M	CoV_Methyltr_2	e8rt4M1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
KA [auth k]	CoV_Methyltr_2	e8rt4k1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
J	CoV_Methyltr_2	e8rt4J1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
HA [auth h]	CoV_Methyltr_2	e8rt4h1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
G	CoV_Methyltr_2	e8rt4G1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
EA [auth e]	CoV_Methyltr_2	e8rt4e1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
D	CoV_Methyltr_2	e8rt4D1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
BA [auth b]	CoV_Methyltr_2	e8rt4b1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)
A	CoV_Methyltr_2	e8rt4A1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: CoV_Methyltr_2	ECOD (v295)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
AA [auth a], C, DA [auth d], F, GA [auth g], AA [auth a], C, DA [auth d], F, GA [auth g], I, JA [auth j], L, MA [auth m], O, PA [auth p], R, U, X	TrwH protein	-	-	cell outer membrane cellular anatomical structure external encapsulating structure extracellular region membrane cell envelope outer membrane
B, CA [auth c], E, FA [auth f], H, B, CA [auth c], E, FA [auth f], H, IA [auth i], K, LA [auth l], N, OA [auth o], Q, T, W, Z	TrwF protein	-	-	cell outer membrane cellular anatomical structure external encapsulating structure extracellular region membrane cell envelope outer membrane
A, BA [auth b], D, EA [auth e], G, A, BA [auth b], D, EA [auth e], G, HA [auth h], J, KA [auth k], M, NA [auth n], P, S, V, Y	TrwE protein	-	-	cell periphery cellular anatomical structure plasma membrane membrane cell outer membrane external encapsulating structure extracellular region cell envelope outer membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, CA [auth c], E, FA [auth f], H, B, CA [auth c], E, FA [auth f], H, IA [auth i], K, LA [auth l], N, OA [auth o], Q, T, W, Z	IPR033645	VirB9/CagX/TrbG, C-terminal	Domain
B, CA [auth c], E, FA [auth f], H, B, CA [auth c], E, FA [auth f], H, IA [auth i], K, LA [auth l], N, OA [auth o], Q, T, W, Z	IPR038161	VirB9/CagX/TrbG, C-terminal domain superfamily	Homologous Superfamily
B, CA [auth c], E, FA [auth f], H, B, CA [auth c], E, FA [auth f], H, IA [auth i], K, LA [auth l], N, OA [auth o], Q, T, W, Z	IPR010258	Conjugal transfer TrbG/VirB9/CagX	Family
A, BA [auth b], D, EA [auth e], G, A, BA [auth b], D, EA [auth e], G, HA [auth h], J, KA [auth k], M, NA [auth n], P, S, V, Y	IPR047695	Type IV secretion system, VirB10/PtlG	Family
A, BA [auth b], D, EA [auth e], G, A, BA [auth b], D, EA [auth e], G, HA [auth h], J, KA [auth k], M, NA [auth n], P, S, V, Y	IPR042217	Type IV secretion system, VirB10/TrbI	Homologous Superfamily
A, BA [auth b], D, EA [auth e], G, A, BA [auth b], D, EA [auth e], G, HA [auth h], J, KA [auth k], M, NA [auth n], P, S, V, Y	IPR005498	Type IV secretion system, VirB10/TraB/TrbI	Family

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

8RT4 | pdb_00008rt4

O-layer structure (TrwH/VirB7, TrwF/VirB9CTD, TrwE/VirB10CTD) of the outer membrane core complex from the fully-assembled R388 type IV secretion system determined by cryo-EM.

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage