2VR3 | pdb_00002vr3

Structural and Biochemical Characterization of Fibrinogen binding to ClfA from Staphylocccus aureus

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	SdrG_C_C	e2vr3B2	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	EUF07753	e2vr3B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: EUF07753	ECOD (1.6)
A	SdrG_C_C	e2vr3A2	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	EUF07753	e2vr3A1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Common fold of diphtheria toxin/transcription factors/cytochrome f	F: EUF07753	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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	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	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
C, D	FIBRINOGEN GAMMA-CHAIN	protein binding binding signaling receptor binding cell adhesion molecule binding structural molecule activity extracellular matrix structural constituent cation binding ion binding metal ion binding small molecule binding	cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis protein polymerization cellular response to stimulus positive regulation of cell communication regulation of cellular process cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis protein polymerization cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus positive regulation of ERK1 and ERK2 cascade regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling positive regulation of MAPK cascade biological regulation positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling regulation of tube diameter multicellular organismal process system process regulation of tube size regulation of system process positive regulation of vasoconstriction circulatory system process regulation of blood circulation vascular process in circulatory system regulation of vasoconstriction positive regulation of multicellular organismal process regulation of multicellular organismal process blood vessel diameter maintenance regulation of biological quality vasoconstriction blood circulation regulation of anatomical structure size response to metal ion response to chemical response to calcium ion extrinsic apoptotic signaling pathway via death domain receptors negative regulation of signaling negative regulation of biological process regulation of programmed cell death extrinsic apoptotic signaling pathway negative regulation of cell communication negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of cellular process cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of programmed cell death regulation of apoptotic process negative regulation of extrinsic apoptotic signaling pathway via death domain receptors cell death negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway negative regulation of apoptotic process regulation of extrinsic apoptotic signaling pathway via death domain receptors apoptotic process programmed cell death regulation of apoptotic signaling pathway regulation of localization transport positive regulation of secretion by cell positive regulation of exocytosis vesicle-mediated transport localization regulation of secretion by cell secretion by cell positive regulation of secretion regulation of transport secretion export from cell regulation of vesicle-mediated transport establishment of localization regulation of secretion positive regulation of transport exocytosis regulation of exocytosis regulation of body fluid levels regulation of response to external stimulus regulation of response to wounding regulation of coagulation response to stress regulation of response to stress coagulation response to wounding regulation of hemostasis wound healing negative regulation of wound healing regulation of blood coagulation negative regulation of blood coagulation hemostasis response to external stimulus negative regulation of response to wounding blood coagulation negative regulation of hemostasis fibrinolysis negative regulation of coagulation negative regulation of response to external stimulus regulation of wound healing negative regulation of multicellular organismal process protein activation cascade primary metabolic process gene expression macromolecule biosynthetic process protein maturation biosynthetic process blood coagulation, fibrin clot formation metabolic process protein metabolic process macromolecule metabolic process homotypic cell-cell adhesion cell activation platelet aggregation cell-cell adhesion platelet activation zymogen activation proteolysis protein processing plasminogen activation positive regulation of substrate adhesion-dependent cell spreading regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of substrate adhesion-dependent cell spreading regulation of cell adhesion positive regulation of cell-substrate adhesion substrate adhesion-dependent cell spreading establishment of protein localization nitrogen compound transport regulation of protein localization positive regulation of establishment of protein localization protein localization to extracellular region positive regulation of protein transport intracellular protein localization regulation of establishment of protein localization establishment of protein localization to extracellular region regulation of protein transport protein secretion positive regulation of protein secretion regulation of protein secretion protein transport macromolecule localization positive regulation of protein localization positive regulation of cell-cell adhesion heterotypic cell-cell adhesion positive regulation of heterotypic cell-cell adhesion regulation of cell-cell adhesion regulation of heterotypic cell-cell adhesion negative regulation of endothelial cell apoptotic process endothelial cell apoptotic process regulation of endothelial cell apoptotic process regulation of hormone secretion regulation of peptide secretion hormone secretion peptide secretion positive regulation of hormone secretion amide transport signal release regulation of peptide hormone secretion positive regulation of peptide secretion regulation of hormone levels positive regulation of peptide hormone secretion regulation of peptide transport cell-cell signaling peptide transport peptide hormone secretion hormone transport	protein-containing complex cellular anatomical structure extracellular region extracellular space fibrinogen complex cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle protein-containing complex cellular anatomical structure extracellular region extracellular space fibrinogen complex cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle blood microparticle intracellular anatomical structure membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen endoplasmic reticulum lumen intracellular organelle organelle lumen endoplasmic reticulum cytoplasm intracellular vesicle cytoplasmic vesicle secretory granule secretory vesicle platelet alpha granule vesicle lumen cytoplasmic vesicle lumen secretory granule lumen platelet alpha granule lumen
A, B	CLUMPING FACTOR A	protein-containing complex binding fibrinogen binding binding protein binding fibronectin binding	cell aggregation cellular process aggregation of unicellular organisms cell adhesion	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR037579	Fibrinogen/angiopoietin-like	Family
C, D	IPR012290	Fibrinogen, alpha/beta/gamma chain, coiled coil domain	Domain
C, D	IPR020837	Fibrinogen, conserved site	Conserved Site
C, D	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
C, D	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
C, D	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily
A, B	IPR050972	Serine-aspartate repeat-containing protein-like	Family
A, B	IPR005877	YSIRK Gram-positive signal peptide	Domain
A, B	IPR008966	Adhesion domain superfamily	Homologous Superfamily
A, B	IPR011252	Fibrogen-binding domain 1	Homologous Superfamily
A, B	IPR011266	Fibrinogen-binding domain 2	Domain
A, B	IPR019931	LPXTG cell wall anchor domain	Domain
A, B	IPR041171	SDR-like Ig domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D	Pharos: P02679	congenital afibrinogenemia familial dysfibrinogenemia keloid Dysfibrinogenemia, Congenital vascular disease adenoma gastric cancer lung carcinoma pancreatic ductal adenocarcinoma cystic fibrosis familial hypofibrinogenemia gastric neoplasm sarcoidosis hereditary diffuse gastric adenocarcinoma lung cancer congenital afibrinogenemia familial dysfibrinogenemia keloid Dysfibrinogenemia, Congenital vascular disease adenoma gastric cancer lung carcinoma pancreatic ductal adenocarcinoma cystic fibrosis familial hypofibrinogenemia gastric neoplasm sarcoidosis hereditary diffuse gastric adenocarcinoma lung cancer non-small cell lung carcinoma

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.