3UI3 | pdb_00003ui3

Structural and Biochemical Characterization of HP0315 from Helicobacter pylori as a VapD Protein with an Endoribonuclease Activity

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	SCOP2B Superfamily	Immunoglobulin-binding domains-like	8090290	3000399	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)
B	CRISPR_Cas2	e3ui3B1	A: a+b two layers	X: Alpha-beta plaits	H: CRISPR associated protein Cas2-like (From Topology)	T: CRISPR associated protein Cas2-like	F: CRISPR_Cas2	ECOD (1.6)
A	IgG_binding_B	e3ui3A5	A: a+b two layers	X: beta-Grasp	H: Immunoglobulin-binding domains (From Topology)	T: Immunoglobulin-binding domains	F: IgG_binding_B	ECOD (1.6)
A	CRISPR_Cas2	e3ui3A6	A: a+b two layers	X: Alpha-beta plaits	H: CRISPR associated protein Cas2-like (From Topology)	T: CRISPR associated protein Cas2-like	F: CRISPR_Cas2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.70.240	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
A	3.10.20.10	Alpha Beta	Roll	Ubiquitin-like (UB roll)		CATH (4.3.0)
A	3.30.70.240	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, B	PF09827	CRISPR associated protein Cas2 (CRISPR_Cas2)	CRISPR associated protein Cas2	-	Family
A, B	PF01378	B domain (IgG_binding_B)	B domain	This domain is found as a tandem repeat in Streptococcal cell surface proteins, such as the IgG binding protein G.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Immunoglobulin G-binding protein G, Virulence-associated protein D	nuclease activity catalytic activity, acting on a nucleic acid catalytic activity RNA binding binding nucleic acid binding protein-containing complex binding immunoglobulin binding IgG binding	-	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR019199	Virulence-associated protein D / CRISPR associated protein Cas2	Family
A, B	IPR016368	Endoribonuclease VapD	Family
A, B	IPR009063	Immunoglobulin/albumin-binding domain superfamily	Homologous Superfamily
A, B	IPR019950	M protein-type anchor domain	Domain
A, B	IPR005877	YSIRK Gram-positive signal peptide	Domain
A, B	IPR000724	IgG-binding B	Domain
A, B	IPR035152	GA-like domain	Domain
A, B	IPR019931	LPXTG cell wall anchor 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 R01GM157729.