3LVH | pdb_00003lvh

Crystal structure of a clathrin heavy chain and clathrin light chain complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
A	SCOP2B Superfamily	ARM repeat-like	8038574	3000116	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ARM repeat-like	8038574	3000116	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ARM repeat-like	8038574	3000116	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)
D	Clathrin_lg_ch	e3lvhD1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Periplasmic binding protein-like II	T: Periplasmic binding protein-like II	F: Clathrin_lg_ch	ECOD (v294.1)
E	DNA_topoisoIV	e3lvhE1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Glycosyl hydrolase domain	T: Glycosyl hydrolase domain	F: DNA_topoisoIV	ECOD (v294.1)
F	MukB_hinge	e3lvhF1	A: a/b three-layered sandwiches	X: Single-stranded left-handed beta-helix	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: MukB_hinge	ECOD (v294.1)
A	FKBP_C	e3lvhA2	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: FKBP_C	ECOD (v294.1)
B	FKBP_C	e3lvhB2	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: FKBP_C	ECOD (v294.1)
C	FKBP_C	e3lvhC2	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: FKBP_C	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00637	Region in Clathrin and VPS (Clathrin)	Region in Clathrin and VPS	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, E, F	Clathrin light chain B	structural molecule activity clathrin heavy chain binding clathrin binding protein binding binding	cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport import into cell clathrin-dependent endocytosis cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport import into cell clathrin-dependent endocytosis receptor-mediated endocytosis endocytosis vesicle-mediated transport	protein-containing complex intracellular anatomical structure plasma membrane protein complex membrane plasma membrane membrane protein complex coated membrane endomembrane system clathrin coat membrane coat cell periphery cellular anatomical structure clathrin-coated pit cytoplasm protein-containing complex intracellular anatomical structure plasma membrane protein complex membrane plasma membrane membrane protein complex coated membrane endomembrane system clathrin coat membrane coat cell periphery cellular anatomical structure clathrin-coated pit cytoplasm clathrin coat of coated pit membrane-bounded organelle synapse intracellular vesicle transport vesicle membrane intracellular organelle presynapse bounding membrane of organelle cytoplasmic vesicle vesicle membrane synaptic vesicle synaptic vesicle membrane cell junction vesicle transport vesicle exocytic vesicle membrane intracellular membrane-bounded organelle cytoplasmic vesicle membrane organelle secretory vesicle organelle membrane exocytic vesicle vesicle coat clathrin coat of trans-Golgi network vesicle trans-Golgi network transport vesicle membrane trans-Golgi network transport vesicle clathrin-coated vesicle clathrin vesicle coat coated vesicle Golgi-associated vesicle clathrin-coated vesicle membrane Golgi apparatus coated vesicle membrane Golgi-associated vesicle membrane
A, B, C	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 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
D, E, F	IPR000996	Clathrin light chain	Family
A, B, C	IPR016341	Clathrin, heavy chain	Family
A, B, C	IPR015348	Clathrin, heavy chain, linker, core motif	Domain
A, B, C	IPR016024	Armadillo-type fold	Homologous Superfamily
A, B, C	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
A, B, C	IPR016025	Clathrin heavy chain, N-terminal	Homologous Superfamily
A, B, C	IPR000547	Clathrin, heavy chain/VPS, 7-fold repeat	Repeat
A, B, C	IPR022365	Clathrin, heavy chain, propeller repeat	Repeat
A, B, C	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.