5M5U | pdb_00005m5u

Clathrin heavy chain N-terminal domain bound to a clathrin-box motif from hepatitis D virus large antigen (clade 1)

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Clathrin heavy-chain terminal domain-like	8042014	3001710	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ARM repeat-like	8042013	3000116	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ARM repeat-like	8042013	3000116	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Clathrin heavy-chain terminal domain-like	8042014	3001710	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)
B	Clathrin_propel	e5m5uB1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: Clathrin_propel	ECOD (1.6)
B	Clathrin-link	e5m5uB2	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: Clathrin-link	ECOD (1.6)
A	Clathrin_propel	e5m5uA2	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: Clathrin_propel	ECOD (1.6)
A	Clathrin-link	e5m5uA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: Clathrin-link	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.130.10.110	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
A	2.130.10.110	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF09268	Clathrin, heavy-chain linker (Clathrin-link)	Clathrin, heavy-chain linker	-	Repeat
A, B	PF01394	Clathrin propeller repeat (Clathrin_propel)	Clathrin propeller repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth E], D [auth F], E [auth G], F [auth H]	Large delta antigen	RNA binding binding nucleic acid binding	biological process involved in interspecies interaction between organisms viral penetration into host nucleus intracellular transport of virus viral process viral life cycle transport of virus biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host biological process involved in interaction with host	host cellular component cellular anatomical structure host cell other organism part virion component host intracellular membrane-bounded organelle host intracellular part host cell nucleus host cell nucleolus host cell nuclear part host intracellular organelle host cell part host intracellular region
A, B	Clathrin heavy chain 1	clathrin binding protein binding binding clathrin light chain binding protein domain specific binding arrestin family protein binding structural molecule activity disordered domain specific binding identical protein binding	cellular process cell cycle mitotic cell cycle cell division catabolic process autophagy metabolic process process utilizing autophagic mechanism cellular component disassembly clathrin coat disassembly transport protein-containing complex organization protein-containing complex disassembly establishment of localization cellular process cell cycle mitotic cell cycle cell division catabolic process autophagy metabolic process process utilizing autophagic mechanism cellular component disassembly clathrin coat disassembly transport protein-containing complex organization protein-containing complex disassembly establishment of localization vesicle-mediated transport vesicle uncoating cellular component organization localization cellular component organization or biogenesis protein depolymerization cellular localization establishment of protein localization nitrogen compound transport intracellular transport protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport clathrin coat assembly cellular component biogenesis cellular component assembly protein-containing complex assembly regulation of cellular process glycosaminoglycan metabolic process negative regulation of biological process regulation of hyaluronan biosynthetic process carbohydrate derivative metabolic process regulation of polysaccharide metabolic process regulation of primary metabolic process negative regulation of hyaluronan biosynthetic process hyaluronan metabolic process polysaccharide metabolic process negative regulation of cellular process glycosaminoglycan biosynthetic process regulation of carbohydrate metabolic process negative regulation of carbohydrate metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process carbohydrate derivative biosynthetic process carbohydrate metabolic process regulation of biological process polysaccharide biosynthetic process negative regulation of metabolic process carbohydrate biosynthetic process biological regulation primary metabolic process regulation of macromolecule metabolic process macromolecule biosynthetic process hyaluronan biosynthetic process biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of polysaccharide biosynthetic process aminoglycan metabolic process aminoglycan biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of carbohydrate biosynthetic process regulation of metabolic process import into cell receptor-mediated endocytosis endocytosis	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex coated membrane membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex coated membrane endomembrane system clathrin coat membrane coat cell periphery clathrin-coated pit clathrin coat of coated pit pigment granule intracellular vesicle melanosome cytoplasmic vesicle vesicle clathrin complex cytoskeleton spindle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton clathrin-coated endocytic vesicle clathrin-coated vesicle coated vesicle endocytic vesicle vesicle coat transport vesicle membrane clathrin coat of trans-Golgi network vesicle bounding membrane of organelle trans-Golgi network transport vesicle membrane trans-Golgi network transport vesicle vesicle membrane clathrin vesicle coat Golgi-associated vesicle clathrin-coated vesicle membrane transport vesicle Golgi apparatus coated vesicle membrane cytoplasmic vesicle membrane Golgi-associated vesicle membrane organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth E], D [auth F], E [auth G], F [auth H]	IPR037517	Hepatitis delta antigen (HDAg) domain	Domain
C [auth E], D [auth F], E [auth G], F [auth H]	IPR002506	Hepatitis delta virus delta antigen	Family
C [auth E], D [auth F], E [auth G], F [auth H]	IPR027403	Delta antigen, N-terminal	Homologous Superfamily
A, B	IPR016341	Clathrin, heavy chain	Family
A, B	IPR015348	Clathrin, heavy chain, linker, core motif	Domain
A, B	IPR016024	Armadillo-type fold	Homologous Superfamily
A, B	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
A, B	IPR016025	Clathrin heavy chain, N-terminal	Homologous Superfamily
A, B	IPR000547	Clathrin, heavy chain/VPS, 7-fold repeat	Repeat
A, B	IPR022365	Clathrin, heavy chain, propeller repeat	Repeat
A, B	IPR055358	Clathrin heavy-chain repeat	Repeat

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.