1XL3

Complex structure of Y.pestis virulence Factors YopN and TyeA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1xl3a1	All alpha proteins	Type III secretion system domain	Type III secretion system domain	LcrE-like	Outer membrane protein yopN (LcrE)	(Yersinia pestis ) [TaxId: 632 ],	SCOPe (2.08)
B	d1xl3b_	All alpha proteins	Type III secretion system domain	Type III secretion system domain	LcrE-like	Outer membrane protein yopN (LcrE)	(Yersinia pestis ) [TaxId: 632 ],	SCOPe (2.08)
C	d1xl3c1	All alpha proteins	Type III secretion system domain	Type III secretion system domain	TyeA-like	TyeA	(Yersinia pestis ) [TaxId: 632 ],	SCOPe (2.08)
D	d1xl3d_	All alpha proteins	Type III secretion system domain	Type III secretion system domain	TyeA-like	TyeA	(Yersinia pestis ) [TaxId: 632 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Type III secretion system domain	8033763	3001358	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Type III secretion system domain	8033763	3001358	SCOP2B (2022-06-29)
C	SCOP2 Family	TyeA-like	8021388	4001348	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Type III secretion system domain	8033768	3001358	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	Type III secretion system domain	8033768	3001358	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	HrpJ	e1xl3A2	A: alpha arrays	X: Type III secretion system domain-like	H: Type III secretion system domains (From Topology)	T: Type III secretion system domains	F: HrpJ	ECOD (1.6)
A	HrpJ_like	e1xl3A1	A: alpha arrays	X: Type III secretion system domain-like	H: Type III secretion system domains (From Topology)	T: Type III secretion system domains	F: HrpJ_like	ECOD (1.6)
B	HrpJ	e1xl3B2	A: alpha arrays	X: Type III secretion system domain-like	H: Type III secretion system domains (From Topology)	T: Type III secretion system domains	F: HrpJ	ECOD (1.6)
B	HrpJ_like	e1xl3B1	A: alpha arrays	X: Type III secretion system domain-like	H: Type III secretion system domains (From Topology)	T: Type III secretion system domains	F: HrpJ_like	ECOD (1.6)
C	TyeA	e1xl3C1	A: alpha arrays	X: Type III secretion system domain-like	H: Type III secretion system domains (From Topology)	T: Type III secretion system domains	F: TyeA	ECOD (1.6)
D	TyeA	e1xl3D1	A: alpha arrays	X: Type III secretion system domain-like	H: Type III secretion system domains (From Topology)	T: Type III secretion system domains	F: TyeA	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.20.1280.80	Mainly Alpha	Up-down Bundle	Monooxygenase		CATH (4.3.0)
D	1.20.1280.80	Mainly Alpha	Up-down Bundle	Monooxygenase		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D	PF09059	TyeA (TyeA)	TyeA	Members of this family are composed of two pairs of parallel alpha-helices, and interact with the bacterial protein YopN via hydrophobic residues located on the helices. Association of TyeA with the C terminus of YopN is accompanied by conformational ...	Members of this family are composed of two pairs of parallel alpha-helices, and interact with the bacterial protein YopN via hydrophobic residues located on the helices. Association of TyeA with the C terminus of YopN is accompanied by conformational changes in both polypeptides that create order out of disorder: the resulting structure then serves as an impediment to type III secretion of YopN [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Secretion control protein	-	negative regulation of protein transport protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process regulation of protein localization transport negative regulation of biological process negative regulation of transport protein localization to extracellular region localization regulation of secretion by cell secretion by cell negative regulation of protein transport protein localization regulation of localization establishment of protein localization cellular localization nitrogen compound transport regulation of cellular process regulation of protein localization transport negative regulation of biological process negative regulation of transport protein localization to extracellular region localization regulation of secretion by cell secretion by cell negative regulation of secretion cellular macromolecule localization negative regulation of cellular process negative regulation of secretion by cell negative regulation of protein localization regulation of biological process regulation of transport secretion biological regulation regulation of establishment of protein localization establishment of protein localization to extracellular region negative regulation of establishment of protein localization export from cell regulation of protein transport protein secretion establishment of localization regulation of protein secretion regulation of secretion negative regulation of protein secretion protein transport regulation of cellular localization macromolecule localization cellular process protein secretion by the type III secretion system transmembrane transport protein transmembrane transport	cell surface cellular anatomical structure cell periphery cell outer membrane external encapsulating structure membrane cell envelope outer membrane
C, D	protein type A	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR013401	Type III secretion regulator, YopN/LcrE/InvE/MxiC	Domain
A, B	IPR010812	Hypersensitivity response secretion-like, HrpJ	Domain
C, D	IPR038347	TyeA superfamily	Homologous Superfamily
C, D	IPR015144	Type III secretion system effector delivery regulator TyeA	Domain
C, D	IPR013351	Type III secretion system effector delivery regulator TyeA-related	Domain

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B	MLY	Parent Component: LYS RESID: AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084
C, D	MLY	Parent Component: LYS RESID: AA0075 , AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084

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.