4ALZ

The Yersinia T3SS basal body component YscD reveals a different structural periplasmatic domain organization to known homologue PrgH

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	SCOP2 Family	BON domain-like	8046000	4005298	SCOP2 (2022-06-29)
A	SCOP2 Family	BON domain-like	8092174	4005298	SCOP2 (2022-06-29)
A	SCOP2 Family	BON domain-like	8092175	4005298	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	BON domain-like	8092176	3002566	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	BON domain-like	8092177	3002566	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	BON domain-like	8092178	3002566	SCOP2 (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	Yop-YscD_ppl_2nd	e4alzA2	A: a+b two layers	X: amino-terminal domain of OmpATb (From Topology)	H: amino-terminal domain of OmpATb (From Topology)	T: amino-terminal domain of OmpATb	F: Yop-YscD_ppl_2nd	ECOD (1.6)
A	Yop-YscD_ppl_1st	e4alzA1	A: a+b two layers	X: amino-terminal domain of OmpATb (From Topology)	H: amino-terminal domain of OmpATb (From Topology)	T: amino-terminal domain of OmpATb	F: Yop-YscD_ppl_1st	ECOD (1.6)
A	Yop-YscD_ppl_3rd	e4alzA3	A: a+b two layers	X: amino-terminal domain of OmpATb (From Topology)	H: amino-terminal domain of OmpATb (From Topology)	T: amino-terminal domain of OmpATb	F: Yop-YscD_ppl_3rd	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1340.30	Alpha Beta	2-Layer Sandwich	Histidine-containing Protein	Chain: A	CATH (4.3.0)
A	3.30.70.1770	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF16693	YscD/CdsD-like Bon-like domain 1 (Yop-YscD_ppl_1st)	YscD/CdsD-like Bon-like domain 1	Yop-YscD-ppl is the periplasmic domain of Yop proteins like YscD from Proteobacteria. YscD forms part of the inner membrane component of the bacterial type III secretion injectosome apparatus [1,2]. This entry represents the first of three periplasm ...	Yop-YscD-ppl is the periplasmic domain of Yop proteins like YscD from Proteobacteria. YscD forms part of the inner membrane component of the bacterial type III secretion injectosome apparatus [1,2]. This entry represents the first of three periplasmic BON domains [3].	Domain
A	PF21937	YscD/CdsD-like Bon-like domain 2 (Yop-YscD_ppl_2nd)	YscD/CdsD-like Bon-like domain 2	Yop-YscD-ppl is the periplasmic domain of Yop proteins like YscD from Proteobacteria. YscD forms part of the inner membrane component of the bacterial type III secretion injectosome apparatus [1,2]. This entry represents the second of three periplasm ...	Yop-YscD-ppl is the periplasmic domain of Yop proteins like YscD from Proteobacteria. YscD forms part of the inner membrane component of the bacterial type III secretion injectosome apparatus [1,2]. This entry represents the second of three periplasmic BON domains.	Domain
A	PF21934	YscD/CdsD-like Bon-like domain 3 (Yop-YscD_ppl_3rd)	YscD/CdsD-like Bon-like domain 3	Yop-YscD-ppl is the periplasmic domain of Yop proteins like YscD from Proteobacteria. YscD forms part of the inner membrane component of the bacterial type III secretion injectosome apparatus [1,2]. This entry represents the third of three periplasmi ...	Yop-YscD-ppl is the periplasmic domain of Yop proteins like YscD from Proteobacteria. YscD forms part of the inner membrane component of the bacterial type III secretion injectosome apparatus [1,2]. This entry represents the third of three periplasmic BON domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	YOP PROTEINS TRANSLOCATION PROTEIN D	-	-	cell periphery plasma membrane membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR012843	Type III secretion system YscD/HrpQ	Family
A	IPR032034	YscD-like, Bon-like domain 1	Domain
A	IPR008984	SMAD/FHA domain superfamily	Homologous Superfamily
A	IPR032030	YscD, cytoplasmic domain	Domain

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 R01GM133198.