3J1V | pdb_00003j1v

A refined model of the prototypical Salmonella typhimurium T3SS basal body reveals the molecular basis for its assembly

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	STN domain-like	8057266	3002388	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Secretin repeat domain-like	8057265	3002387	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Secretin_N	e3j1vA1	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
A	PRK15339	e3j1vA2	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
B	Secretin_N	e3j1vB2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
B	PRK15339	e3j1vB3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
C	Secretin_N	e3j1vC2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
C	PRK15339	e3j1vC3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
D	Secretin_N	e3j1vD2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
D	PRK15339	e3j1vD3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
E	Secretin_N	e3j1vE2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
E	PRK15339	e3j1vE3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
F	Secretin_N	e3j1vF2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
F	PRK15339	e3j1vF3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
G	Secretin_N	e3j1vG2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
G	PRK15339	e3j1vG3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
H	Secretin_N	e3j1vH2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
H	PRK15339	e3j1vH3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
I	Secretin_N	e3j1vI2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
I	PRK15339	e3j1vI3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
J	Secretin_N	e3j1vJ2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
J	PRK15339	e3j1vJ3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
K	Secretin_N	e3j1vK2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
K	PRK15339	e3j1vK3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
L	Secretin_N	e3j1vL2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
L	PRK15339	e3j1vL3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
M	Secretin_N	e3j1vM2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
M	PRK15339	e3j1vM3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
N	Secretin_N	e3j1vN2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
N	PRK15339	e3j1vN3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)
O	Secretin_N	e3j1vO2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: Ring-building motif II in type III secretion system (From Topology)	T: Ring-building motif II in type III secretion system	F: Secretin_N	ECOD (1.6)
O	PRK15339	e3j1vO3	A: a+b complex topology	X: N0 domain in phage tail proteins and secretins-like	H: N0 domain in phage tail proteins and secretins (From Topology)	T: N0 domain in phage tail proteins and secretins	F: PRK15339	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	PF03958	Bacterial type II/III secretion system short domain (Secretin_N)	Bacterial type II/III secretion system short domain	This is a short, often repeated, domain found in bacterial type II/III secretory system proteins. All previous NolW-like domains fall into this family.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	PF21304	SPI-1 type 3 secretion system secretin, N0 domain (T3S_SPI-1_N0)	SPI-1 type 3 secretion system secretin, N0 domain	SPI-1 type 3 secretion system secretin forms a ring-shaped multimeric structure which is used to inject bacterial effector proteins into eukaryotic host cells [1-3]. It consists of several N-terminal short domains and a C-terminal secretin domain (P ...	SPI-1 type 3 secretion system secretin forms a ring-shaped multimeric structure which is used to inject bacterial effector proteins into eukaryotic host cells [1-3]. It consists of several N-terminal short domains and a C-terminal secretin domain (Pfam:PF00263). This entry represents the N-terminal N0 domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	Protein InvG	identical protein binding protein binding binding	establishment of protein localization nitrogen compound transport transport secretion establishment of protein localization to extracellular region export from cell protein secretion establishment of localization protein localization to extracellular region localization secretion by cell protein transport macromolecule localization cellular process establishment of protein localization nitrogen compound transport transport secretion establishment of protein localization to extracellular region export from cell protein secretion establishment of localization protein localization to extracellular region localization secretion by cell protein transport macromolecule localization cellular process intracellular protein localization protein secretion by the type III secretion system transmembrane transport protein transmembrane transport	protein-containing complex type II protein secretion system complex type III protein secretion system complex cell periphery cell outer membrane cellular anatomical structure external encapsulating structure membrane cell envelope outer membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	IPR050810	Bacterial Secretion System Channel Protein	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	IPR005644	NolW-like	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	IPR004846	Type II/III secretion system, secretin-like domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	IPR038591	NolW-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	IPR003522	Type III secretion system outer membrane pore YscC/HrcC	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	IPR004845	Type II secretion system protein GspD, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	IPR049034	SPI-1 type 3 secretion system secretin, N0 domain	Domain