1PDC | pdb_00001pdc

REFINED SOLUTION STRUCTURE AND LIGAND-BINDING PROPERTIES OF PDC-109 DOMAIN B. A COLLAGEN-BINDING TYPE II DOMAIN

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	d1pdca_	Small proteins	Kringle-like	Kringle-like	Fibronectin type II module	PDC-109, collagen-binding type II domain	cattle (Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Kringle-like	8039436	3000761	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	fn2	e1pdcA1	A: few secondary structure elements	X: Kringle-like (From Topology)	H: Kringle-like (From Topology)	T: Kringle-like	F: fn2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.10.10.10	Mainly Beta	Ribbon	Seminal Fluid Protein PDC-109 (Domain B)	Fibronectin, type II, collagen-binding	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00040	Fibronectin type II domain (fn2)	Fibronectin type II domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	SEMINAL FLUID PROTEIN PDC-109	heparin binding glycosaminoglycan binding binding carbohydrate derivative binding sulfur compound binding	sexual reproduction reproductive process fertilization single fertilization developmental process spermatid development spermatid differentiation cellular developmental process spermatogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental maturation developmental process involved in reproduction sexual reproduction reproductive process fertilization single fertilization developmental process spermatid development spermatid differentiation cellular developmental process spermatogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental maturation developmental process involved in reproduction gamete generation male gamete generation sperm capacitation anatomical structure maturation cell differentiation anatomical structure development germ cell development cellular process cell maturation multicellular organismal process regulation of cellular process regulation of developmental process regulation of reproductive process positive regulation of biological process regulation of sperm capacitation positive regulation of cell maturation regulation of cell differentiation regulation of cell development positive regulation of developmental process positive regulation of cell differentiation regulation of multicellular organismal process regulation of cell maturation positive regulation of cellular process positive regulation of reproductive process regulation of biological process biological regulation positive regulation of cell development positive regulation of sperm capacitation positive regulation of multicellular organismal process localization transport macromolecule localization phospholipid transport lipid localization lipid transport establishment of localization organophosphate ester transport phospholipid efflux	cell surface cellular anatomical structure extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR013806	Kringle-like fold	Homologous Superfamily
A	IPR016356	Seminal plasma protein, PDC-109-like	Family
A	IPR036943	Fibronectin type II domain superfamily	Homologous Superfamily
A	IPR051666	Seminal Plasma Capacitation Regulator	Family
A	IPR000562	Fibronectin type II 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.