4KJM

Crystal structure of the Staphylococcus aureus protein (NP_646141.1, domain 3912-4037) similar to streptococcal adhesins emb and ebhA/ebhB

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4kjma1	All alpha proteins	immunoglobulin/albumin-binding domain-like	Bacterial immunoglobulin/albumin-binding domains	GA module, an albumin-binding domain	Ebh protein	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
A	d4kjma3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
B	d4kjmb1	All alpha proteins	immunoglobulin/albumin-binding domain-like	Bacterial immunoglobulin/albumin-binding domains	GA module, an albumin-binding domain	Ebh protein	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)
B	d4kjmb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Staphylococcus aureus subsp. aureus MW2 ) [TaxId: 196620 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	GA module-like	8031797	4000723	SCOP2 (2022-06-29)
A	SCOP2 Family	GA module-like	8031798	4000723	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Bacterial immunoglobulin/albumin-binding domains	8044175	3001373	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Bacterial immunoglobulin/albumin-binding domains	8044176	3001373	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Bacterial immunoglobulin/albumin-binding domains	8044175	3001373	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Bacterial immunoglobulin/albumin-binding domains	8044176	3001373	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	FIVAR	e4kjmA1	A: alpha bundles	X: immunoglobulin/albumin-binding domain-like	H: Bacterial immunoglobulin/albumin-binding domains (From Topology)	T: Bacterial immunoglobulin/albumin-binding domains	F: FIVAR	ECOD (1.6)
A	GA	e4kjmA2	A: alpha bundles	X: immunoglobulin/albumin-binding domain-like	H: Bacterial immunoglobulin/albumin-binding domains (From Topology)	T: Bacterial immunoglobulin/albumin-binding domains	F: GA	ECOD (1.6)
B	FIVAR	e4kjmB3	A: alpha bundles	X: immunoglobulin/albumin-binding domain-like	H: Bacterial immunoglobulin/albumin-binding domains (From Topology)	T: Bacterial immunoglobulin/albumin-binding domains	F: FIVAR	ECOD (1.6)
B	GA	e4kjmB2	A: alpha bundles	X: immunoglobulin/albumin-binding domain-like	H: Bacterial immunoglobulin/albumin-binding domains (From Topology)	T: Bacterial immunoglobulin/albumin-binding domains	F: GA	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.5.420	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Immunoglobulin FC, subunit C	CATH (4.3.0)
B	1.20.5.420	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Immunoglobulin FC, subunit C	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF07554	FIVAR domain (FIVAR)	FIVAR domain	This domain is found in a wide variety of contexts, but mostly occurring in cell wall associated proteins. A lack of conserved catalytic residues suggests that it is a binding domain. From context, possible substrates are hyaluronate or fibronectin ( ...	This domain is found in a wide variety of contexts, but mostly occurring in cell wall associated proteins. A lack of conserved catalytic residues suggests that it is a binding domain. From context, possible substrates are hyaluronate or fibronectin (personal obs: C Yeats). This is further evidenced by [1]. Possibly the exact substrate is N-acetyl glucosamine. Finding it in the same protein as Pfam:PF05089 further supports this proposal. It is found in the C-terminal part of Swiss:O82833, which is removed during maturation ([2]). Some of the proteins it is found in (e.g. Swiss:Q9RL69) are involved in methicillin resistance ([3]). The name FIVAR derives from Found In Various Architectures.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Extracellular matrix-binding protein ebh	-	-	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR009063	Immunoglobulin/albumin-binding domain superfamily	Homologous Superfamily
A, B	IPR005877	YSIRK Gram-positive signal peptide	Domain
A, B	IPR011439	Domain of unknown function DUF1542	Domain
A, B	IPR026361	Extracellular matrix-binding protein Ebh domain	Domain
A, B	IPR020840	Extracellular matrix-binding protein ebh, GA module	Domain
A, B	IPR051197	Extracellular matrix-binding protein	Family
A, B	IPR002988	Protein G-related albumin-binding (GA) module	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.