Annotations: 9I5A

Crystal structure of wild type perlecan region 3 construct I876-V1272 construct including one laminin IV-like and four laminin EGF-like domains.

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Beta-Casp	e9i5aB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
A	Stathmin	e9i5aA01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Stathmin	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF24973	Laminin/attractin EGF domain (EGF_LMN_ATRN)	Laminin/attractin EGF domain	This entry represents the EGF-like domains found in laminin subunits (alpha, beta, gamma), attractin (ATRN), netrin, among others. ATRN is involved in the initial immune cell clustering during inflammatory response and may regulate chemotactic activi ...	This entry represents the EGF-like domains found in laminin subunits (alpha, beta, gamma), attractin (ATRN), netrin, among others. ATRN is involved in the initial immune cell clustering during inflammatory response and may regulate chemotactic activity of chemokines. It may play a role in melanocortin signaling pathways that regulate energy homeostasis and hair color [1]. It was thought to have dipeptidase activity but it was shown later to lack that activity [2]. Laminins are crucial for the formation of stable basement membranes and organising receptor complexes and cytoskeletal components. Netrins control guidance of central nervous system commissural axons and peripheral motor axons, serving as survival factors and regulating apoptosis.	Domain
A, B	PF00052	Laminin B (Domain IV) (Laminin_B)	Laminin B (Domain IV)		Domain
A, B	PF00053	Laminin EGF domain (EGF_laminin)	Laminin EGF domain	This family is like Pfam:PF00008 but has 8 conserved cysteines instead of six.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Basement membrane-specific heparan sulfate proteoglycan core protein	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding dystroglycan binding protein binding enzyme binding protease binding collagen binding protein-containing complex binding collagen V binding molecular adaptor activity	developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation smoothened signaling pathway cell communication cellular process signal transduction tissue development anatomical structure morphogenesis animal organ morphogenesis negative regulation of signaling modulation of chemical synaptic transmission negative regulation of biological process negative regulation of synaptic transmission negative regulation of cell communication synaptic signaling negative regulation of synaptic transmission, cholinergic negative regulation of cellular process trans-synaptic signaling regulation of signaling cell-cell signaling chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling synaptic transmission, cholinergic regulation of cell communication regulation of synaptic transmission, cholinergic blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development tube morphogenesis anatomical structure formation involved in morphogenesis blood vessel development cellular component organization extracellular matrix organization cellular component organization or biogenesis extracellular structure organization external encapsulating structure organization localization protein localization to synapse macromolecule localization intracellular protein localization protein localization to cell junction endochondral ossification replacement ossification endochondral bone morphogenesis skeletal system development ossification skeletal system morphogenesis bone morphogenesis bone development embryonic organ morphogenesis chordate embryonic development embryonic morphogenesis embryo development embryo development ending in birth or egg hatching embryonic skeletal system development embryonic organ development embryonic skeletal system morphogenesis neuron apoptotic process negative regulation of neuron apoptotic process negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death negative regulation of apoptotic process apoptotic process programmed cell death regulation of neuron apoptotic process negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation connective tissue development cartilage development involved in endochondral bone morphogenesis cartilage development heart development cardiac muscle tissue development striated muscle tissue development muscle tissue development cellular developmental process cell differentiation chondrocyte differentiation positive regulation of cell population proliferation endothelial cell proliferation positive regulation of epithelial cell proliferation positive regulation of biological process regulation of endothelial cell proliferation positive regulation of endothelial cell proliferation regulation of epithelial cell proliferation epithelial cell proliferation positive regulation of cellular process regulation of cellular component organization negative regulation of amyloid fibril formation regulation of amyloid fibril formation amyloid fibril formation regulation of primary metabolic process negative regulation of supramolecular fiber organization protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of cellular component organization regulation of protein metabolic process negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process regulation of supramolecular fiber organization metabolic process macromolecule metabolic process supramolecular fiber organization regulation of metabolic process import into cell transport receptor-mediated endocytosis endocytosis establishment of localization vesicle-mediated transport cell adhesion regulation of cell adhesion negative regulation of cell adhesion	basement membrane extracellular matrix cellular anatomical structure external encapsulating structure extracellular region membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle basement membrane extracellular matrix cellular anatomical structure external encapsulating structure extracellular region membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle organelle lumen organelle cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR002172	Low-density lipoprotein (LDL) receptor class A repeat	Repeat
A, B	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, B	IPR003598	Immunoglobulin subtype 2	Domain
A, B	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A, B	IPR013106	Immunoglobulin V-set domain	Domain
A, B	IPR036055	LDL receptor-like superfamily	Homologous Superfamily
A, B	IPR003599	Immunoglobulin domain subtype	Domain
A, B	IPR002049	Laminin-type EGF domain	Domain
A, B	IPR000742	EGF-like domain	Domain
A, B	IPR013098	Immunoglobulin I-set	Domain
A, B	IPR050958	Cell Adhesion and Cytoskeletal Organization	Family
A, B	IPR001791	Laminin G domain	Domain
A, B	IPR056863	Laminin/attractin/netrin-like, EGF domain	Domain
A, B	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B	IPR001881	EGF-like calcium-binding domain	Domain
A, B	IPR023415	Low-density lipoprotein (LDL) receptor class A, conserved site	Conserved Site
A, B	IPR007110	Immunoglobulin-like domain	Domain
A, B	IPR000034	Laminin IV	Domain
A, B	IPR000082	SEA domain	Domain

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

9I5A | pdb_00009i5a

Crystal structure of wild type perlecan region 3 construct I876-V1272 construct including one laminin IV-like and four laminin EGF-like domains.

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage