1R19 | pdb_00001r19

Crystal Structure Analysis of S.epidermidis adhesin SdrG binding to Fibrinogen (Apo structure)

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)
D	d1r19d1	All beta proteins	Common fold of diphtheria toxin/transcription factors/cytochrome f	Bacterial adhesins	Fibrinogen-binding domain	Fibrinogen-binding adhesin SdrG	(Staphylococcus epidermidis ) [TaxId: 1282 ],	SCOPe (2.08)
C	d1r19c1	All beta proteins	Common fold of diphtheria toxin/transcription factors/cytochrome f	Bacterial adhesins	Fibrinogen-binding domain	Fibrinogen-binding adhesin SdrG	(Staphylococcus epidermidis ) [TaxId: 1282 ],	SCOPe (2.08)
B	d1r19b1	All beta proteins	Common fold of diphtheria toxin/transcription factors/cytochrome f	Bacterial adhesins	Fibrinogen-binding domain	Fibrinogen-binding adhesin SdrG	(Staphylococcus epidermidis ) [TaxId: 1282 ],	SCOPe (2.08)
A	d1r19a1	All beta proteins	Common fold of diphtheria toxin/transcription factors/cytochrome f	Bacterial adhesins	Fibrinogen-binding domain	Fibrinogen-binding adhesin SdrG	(Staphylococcus epidermidis ) [TaxId: 1282 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Bacterial adhesin-like	8040204	3000723	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Bacterial adhesin-like	8040205	3000723	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Bacterial adhesin-like	8040204	3000723	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Bacterial adhesin-like	8040205	3000723	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Bacterial adhesin-like	8040205	3000723	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Bacterial adhesin-like	8040204	3000723	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Bacterial adhesin-like	8040204	3000723	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Bacterial adhesin-like	8040205	3000723	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)
D	SdrG_C_C	e1r19D2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: SdrG_C_C	ECOD (1.6)
D	EUF07751	e1r19D1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: EUF07751	ECOD (1.6)
C	SdrG_C_C	e1r19C2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: SdrG_C_C	ECOD (1.6)
C	EUF07751	e1r19C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: EUF07751	ECOD (1.6)
B	SdrG_C_C	e1r19B2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: SdrG_C_C	ECOD (1.6)
B	EUF07751	e1r19B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: EUF07751	ECOD (1.6)
A	SdrG_C_C	e1r19A2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: SdrG_C_C	ECOD (1.6)
A	EUF07751	e1r19A1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: EUF07751	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.60.40.1280	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
D	2.60.40.1290	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
C	2.60.40.1280	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
C	2.60.40.1290	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
B	2.60.40.1280	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
B	2.60.40.1290	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
A	2.60.40.1280	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
A	2.60.40.1290	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF17961	Bacterial Ig domain (Big_8)	Bacterial Ig domain	This entry represents a bacterial Ig-fold domain that is found in a wide range of bacterial cell surface adherence proteins.	Domain
A, B, C, D	PF10425	C-terminus of bacterial fibrinogen-binding adhesin (SdrG_C_C)	C-terminus of bacterial fibrinogen-binding adhesin	This is the C-terminal half of a bacterial fibrinogen-binding adhesin SdrG. SdrG is a Gram-positive cell-wall-anchored adhesin that allows attachment of the bacterium to host tissues via specific binding to the beta-chain of human fibrinogen (Fg). Sd ...	This is the C-terminal half of a bacterial fibrinogen-binding adhesin SdrG. SdrG is a Gram-positive cell-wall-anchored adhesin that allows attachment of the bacterium to host tissues via specific binding to the beta-chain of human fibrinogen (Fg). SdrG binds to its ligand with a dynamic "dock, lock, and latch" mechanism which represents a general mode of ligand-binding for structurally related cell wall-anchored proteins in most Gram-positive bacteria. The C-terminal part of SdrG(276-596) is integral to the folding of the immunoglobulin-like whole to create the docking grooves necessary for Fg binding. The domain is associated with families of Cna_B, Pfam:PF05738 [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	fibrinogen-binding protein SdrG	cation binding ion binding binding metal ion binding small molecule binding	cell adhesion cellular process	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR033764	SD-repeat containing protein, B domain	Domain
A, B, C, D	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C, D	IPR005877	YSIRK Gram-positive signal peptide	Domain
A, B, C, D	IPR008966	Adhesion domain superfamily	Homologous Superfamily
A, B, C, D	IPR011252	Fibrogen-binding domain 1	Homologous Superfamily
A, B, C, D	IPR011266	Fibrinogen-binding domain 2	Domain
A, B, C, D	IPR019931	LPXTG cell wall anchor domain	Domain
A, B, C, D	IPR041171	SDR-like Ig 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.