3R6N | pdb_00003r6n

Crystal structure of a rigid four spectrin repeat fragment of the human desmoplakin plakin domain

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Spectrin repeat	8091356	3000156	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Spectrin repeat	8091357	3000156	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SH3-domain	8004077	3000153	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Spectrin repeat	8004074	3000156	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Spectrin repeat	8091357	3000156	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Spectrin repeat	8091358	3000156	SCOP2B (2022-06-29)
A	SCOP2 Family	Spectrin repeat	8004070	4000370	SCOP2 (2022-06-29)
A	SCOP2 Family	Spectrin repeat	8004071	4000370	SCOP2 (2022-06-29)
A	SCOP2 Family	Spectrin repeat	8004072	4000370	SCOP2 (2022-06-29)
A	SCOP2 Family	Spectrin repeat	8004073	4000370	SCOP2 (2022-06-29)
A	SCOP2 Family	SH3-domain	8004076	4000369	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Spectrin repeat	8091356	3000156	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Spectrin repeat	8004074	3000156	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Spectrin repeat	8091357	3000156	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Spectrin repeat	8091358	3000156	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	SH3-domain	8004077	3000153	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Radical_SAM	e3r6nB1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Radical_SAM	ECOD (v294.1)
A		e3r6nA1	A: a/b three-layered sandwiches	X: Cupredoxin-like	H: Cupredoxin-related	T: Cupredoxin-related	F:	ECOD (v294.1)
A	SH3_10	e3r6nA3	A: a/b three-layered sandwiches	X: Cupredoxin-like	H: Cupredoxin-related	T: Cupredoxin-related	F: SH3_10	ECOD (v294.1)
A	polyprenyl_synt	e3r6nA5	A: a/b three-layered sandwiches	X: Cupredoxin-like	H: Cupredoxin-related	T: Cupredoxin-related	F: polyprenyl_synt	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.20.58.60	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
B	1.20.58.1060	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
B	2.30.30.40	Mainly Beta	Roll	SH3 type barrels.	SH3 Domains	CATH (4.3.0)
A	1.20.58.60	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
A	1.20.58.1060	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
A	2.30.30.40	Mainly Beta	Roll	SH3 type barrels.	SH3 Domains	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF18373	Spectrin like domain (Spectrin_2)	Spectrin like domain	Desmoplakin (DP) is an integral part of desmosomes, where it links desmosomal cadherins to the intermediate filaments. The N-terminal region of DP contains a plakin domain common to members of the plakin family. Plakin domains contain multiple copies ...	Desmoplakin (DP) is an integral part of desmosomes, where it links desmosomal cadherins to the intermediate filaments. The N-terminal region of DP contains a plakin domain common to members of the plakin family. Plakin domains contain multiple copies of spectrin repeats (SRs) Pfam:PF00435. Spectrin repeats (SRs) consist of three alpha-helices (A, B, and C) that form an antiparallel triple-helical bundle. This entry describes SR6 which has a divergent structure relative to the other SRs. SR6 shows significant deviations in helices A and B where they are significantly shorter than in other repeats. Structural comparison revealed that SR6 is more similar to other three-helix-bundle proteins, including target of Myb1 and the syntaxin Habc domain, than to other SR proteins. Due to these differences with other spectrin repeats, this region is termed spectrin-like repeat [1].	Domain
A, B	PF17902	SH3 domain (SH3_10)	SH3 domain	This entry represents an SH3 domain.	Domain
A, B	PF21019	Spectrin-like repeat (Spectrin_3)	Spectrin-like repeat		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Desmoplakin	cell adhesion molecule binding cell adhesive protein binding involved in bundle of His cell-Purkinje myocyte communication protein binding binding cell adhesion mediator activity cell-cell adhesion mediator activity protein binding involved in heterotypic cell-cell adhesion scaffold protein binding RNA binding nucleic acid binding kinase binding protein kinase C binding enzyme binding protein kinase binding cell adhesion molecule binding cell adhesive protein binding involved in bundle of His cell-Purkinje myocyte communication protein binding binding cell adhesion mediator activity cell-cell adhesion mediator activity protein binding involved in heterotypic cell-cell adhesion scaffold protein binding RNA binding nucleic acid binding kinase binding protein kinase C binding enzyme binding protein kinase binding structural constituent of cytoskeleton structural molecule activity	adherens junction organization cellular component organization cell junction organization cellular process cellular component organization or biogenesis cell-cell junction organization developmental process epithelium development epidermal cell differentiation cellular developmental process epidermis development animal organ development tissue development epithelial cell differentiation adherens junction organization cellular component organization cell junction organization cellular process cellular component organization or biogenesis cell-cell junction organization developmental process epithelium development epidermal cell differentiation cellular developmental process epidermis development animal organ development tissue development epithelial cell differentiation skin development cell differentiation keratinocyte differentiation anatomical structure development desmosome organization cell adhesion cell-cell adhesion epithelial cell-cell adhesion heart process multicellular organismal process system process regulation of heart contraction regulation of system process homotypic cell-cell adhesion cell communication heterotypic cell-cell adhesion circulatory system process regulation of multicellular organismal process cell communication involved in cardiac conduction blood circulation bundle of His cell to Purkinje myocyte communication regulation of biological process cardiac muscle cell-cardiac muscle cell adhesion biological regulation regulation of blood circulation cardiac conduction bundle of His cell-Purkinje myocyte adhesion involved in cell communication heart contraction regulation of actin filament-based process regulation of cellular process cardiac muscle cell action potential involved in contraction regulation of ventricular cardiac muscle cell action potential cardiac muscle contraction striated muscle contraction regulation of cardiac muscle cell action potential actin filament-based process regulation of biological quality cardiac muscle cell contraction regulation of action potential ventricular cardiac muscle cell action potential regulation of cardiac muscle contraction action potential actin filament-based movement muscle contraction muscle system process regulation of muscle system process regulation of striated muscle contraction regulation of actin filament-based movement regulation of muscle contraction regulation of cardiac muscle cell contraction actin-mediated cell contraction cardiac muscle cell action potential regulation of membrane potential wound healing response to stimulus response to stress response to wounding intermediate filament-based process organelle organization cytoskeleton organization intermediate filament cytoskeleton organization localization macromolecule localization intracellular protein localization protein localization to cell junction protein localization to cell-cell junction ventricular cardiac muscle tissue morphogenesis heart morphogenesis striated muscle tissue development muscle structure development multicellular organism development ventricular cardiac muscle tissue development cardiac chamber development animal organ morphogenesis muscle tissue development muscle organ development system development heart development cardiac chamber morphogenesis cardiac muscle tissue development muscle tissue morphogenesis circulatory system development anatomical structure morphogenesis tissue morphogenesis ventricular compact myocardium morphogenesis cardiac ventricle morphogenesis cardiac muscle tissue morphogenesis cardiac ventricle development muscle organ morphogenesis intermediate filament organization supramolecular fiber organization regulation of heart rate by cardiac conduction regulation of heart rate peptide cross-linking macromolecule modification metabolic process primary metabolic process protein metabolic process macromolecule metabolic process protein modification process	cell periphery cellular anatomical structure plasma membrane membrane cornified envelope extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle polymeric cytoskeletal fiber cell periphery cellular anatomical structure plasma membrane membrane cornified envelope extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle polymeric cytoskeletal fiber intracellular anatomical structure intracellular membraneless organelle intermediate filament cytoskeleton intracellular organelle cytoskeleton membraneless organelle intermediate filament supramolecular fiber supramolecular polymer supramolecular complex basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane cytoplasm cell-cell junction adherens junction anchoring junction cell junction intercalated disc fascia adherens cell-cell contact zone desmosome ficolin-1-rich granule membrane intracellular vesicle intracellular membrane-bounded organelle ficolin-1-rich granule endomembrane system tertiary granule cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle secretory granule secretory vesicle organelle membrane secretory granule membrane nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR041615	Desmoplakin, SH3 domain	Domain
A, B	IPR043197	Plakin	Family
A, B	IPR001101	Plectin repeat	Repeat
A, B	IPR035915	Plakin repeat superfamily	Homologous Superfamily
A, B	IPR001452	SH3 domain	Domain
A, B	IPR018159	Spectrin/alpha-actinin	Repeat
A, B	IPR041573	Desmoplakin, spectrin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P15924	idiopathic pulmonary fibrosis lethal acantholytic epidermolysis bullosa arrhythmogenic right ventricular dysplasia 8 skin fragility-woolly hair-palmoplantar keratoderma syndrome arrhythmogenic cardiomyopathy with woolly hair and keratoderma cardiomyopathy, dilated, with woolly hair, keratoderma, and tooth agenesis keratosis palmoplantaris striata 2 arrhythmogenic right ventricular cardiomyopathy palmoplantar keratosis epidermolysis bullosa cardiomyopathy chronic obstructive pulmonary disease Death, Sudden, Cardiac pulmonary fibrosis dilated cardiomyopathy idiopathic pulmonary fibrosis lethal acantholytic epidermolysis bullosa arrhythmogenic right ventricular dysplasia 8 skin fragility-woolly hair-palmoplantar keratoderma syndrome arrhythmogenic cardiomyopathy with woolly hair and keratoderma cardiomyopathy, dilated, with woolly hair, keratoderma, and tooth agenesis keratosis palmoplantaris striata 2 arrhythmogenic right ventricular cardiomyopathy palmoplantar keratosis epidermolysis bullosa cardiomyopathy chronic obstructive pulmonary disease Death, Sudden, Cardiac pulmonary fibrosis dilated cardiomyopathy idiopathic interstitial pneumonia severe dermatitis-multiple allergies-metabolic wasting syndrome isolated familial woolly hair disorder lung cancer acute interstitial pneumonia malignant ependymoma non-small cell lung carcinoma Charcot-Marie-Tooth disease hypertrophic cardiomyopathy IgA glomerulonephritis keratosis long QT syndrome lung carcinoma malignant mesothelioma atypical teratoid rhabdoid tumor oligodendroglioma striate palmoplantar keratoderma erythrokeratoderma interstitial cystitis lung adenocarcinoma lymphoplasmacytic lymphoma medulloblastoma B-cell chronic lymphocytic leukemia ovarian cancer sudden cardiac arrest cystic fibrosis ductal breast carcinoma in situ

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.