2X3X

structure of mouse syndapin I (crystal form 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)
D	SCOP2B Superfamily	SH3-domain	8062105	3000153	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	SH3-domain	8062105	3000153	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	PF00611	e2x3xA1	A: alpha duplicates or obligate multimers	X: BAR/IMD domain-like	H: BAR/IMD domain-like (From Topology)	T: BAR/IMD domain-like	F: PF00611	ECOD (1.6)
B	PF00611	e2x3xB1	A: alpha duplicates or obligate multimers	X: BAR/IMD domain-like	H: BAR/IMD domain-like (From Topology)	T: BAR/IMD domain-like	F: PF00611	ECOD (1.6)
C	PF00611	e2x3xC1	A: alpha duplicates or obligate multimers	X: BAR/IMD domain-like	H: BAR/IMD domain-like (From Topology)	T: BAR/IMD domain-like	F: PF00611	ECOD (1.6)
D	PF14604	e2x3xD1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF14604	ECOD (1.6)
E	PF14604	e2x3xE1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF14604	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.1270.60	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
B	1.20.1270.60	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
C	1.20.1270.60	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
D	2.30.30.40	Mainly Beta	Roll	SH3 type barrels.	SH3 Domains	CATH (4.3.0)
E	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, C	PF00611	Fes/CIP4, and EFC/F-BAR homology domain (FCH)	Fes/CIP4, and EFC/F-BAR homology domain	-	Family
D, E	PF14604	Variant SH3 domain (SH3_9)	Variant SH3 domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	PROTEIN KINASE C AND CASEIN KINASE SUBSTRATE IN NEURONS PROTEIN 1	cytoskeletal protein binding protein binding binding phospholipid binding lipid binding identical protein binding	synaptic vesicle endocytosis import into cell cellular localization transport synaptic vesicle cycle establishment of localization vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle recycling localization establishment of localization in cell cellular process endocytosis synaptic vesicle endocytosis import into cell cellular localization transport synaptic vesicle cycle establishment of localization vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle recycling localization establishment of localization in cell cellular process endocytosis regulation of localization regulation of biological process regulation of cellular process regulation of cellular component organization regulation of transport biological regulation regulation of vesicle-mediated transport cellular component organization cellular component organization or biogenesis regulation of endocytosis protein localization protein localization to cell periphery protein localization to plasma membrane cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane cellular response to stimulus response to stimulus signaling signal transduction cell communication multicellular organismal process cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis neurogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development system development developmental process plasma membrane bounded cell projection organization nervous system development generation of neurons anatomical structure morphogenesis neuron development plasma membrane tubulation membrane organization plasma membrane organization endomembrane system organization organelle organization cytoskeleton organization negative regulation of cellular component organization negative regulation of biological process negative regulation of transport negative regulation of endocytosis negative regulation of cellular process regulation of neuron projection development positive regulation of cellular component organization regulation of developmental process positive regulation of biological process positive regulation of developmental process dendrite development positive regulation of neuron projection development positive regulation of cell projection organization positive regulation of cellular process regulation of cell projection organization positive regulation of dendrite development regulation of dendrite development regulation of plasma membrane bounded cell projection organization actin cytoskeleton organization actin filament organization actin filament-based process supramolecular fiber organization receptor internalization postsynaptic neurotransmitter receptor internalization regulation of receptor internalization regulation of postsynaptic neurotransmitter receptor internalization regulation of biological quality regulation of receptor-mediated endocytosis protein-containing complex localization neurotransmitter receptor internalization regulation of postsynaptic membrane neurotransmitter receptor levels postsynaptic endocytosis receptor-mediated endocytosis	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane cellular anatomical entity postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane cellular anatomical entity postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region myelin sheath ruffle cell leading edge leading edge membrane plasma membrane bounded cell projection cell projection ruffle membrane cell projection membrane intracellular anatomical structure cytoplasm cytosol glutamatergic synapse membrane-bounded organelle intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane vesicle membrane cytoplasmic vesicle vesicle organelle membrane COPI-coated vesicle coated vesicle Golgi-associated vesicle photoreceptor ribbon synapse ribbon synapse presynapse presynaptic endocytic zone endosome endomembrane system perinuclear region of cytoplasm axon neuron projection axon terminus distal axon neuron projection terminus
D, E	PROTEIN KINASE C AND CASEIN KINASE SUBSTRATE IN NEURONS PROTEIN 1	cytoskeletal protein binding protein binding binding phospholipid binding lipid binding identical protein binding	synaptic vesicle endocytosis import into cell cellular localization transport synaptic vesicle cycle establishment of localization vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle recycling localization establishment of localization in cell cellular process endocytosis synaptic vesicle endocytosis import into cell cellular localization transport synaptic vesicle cycle establishment of localization vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle recycling localization establishment of localization in cell cellular process endocytosis regulation of localization regulation of biological process regulation of cellular process regulation of cellular component organization regulation of transport biological regulation regulation of vesicle-mediated transport cellular component organization cellular component organization or biogenesis regulation of endocytosis protein localization protein localization to cell periphery protein localization to plasma membrane cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane cellular response to stimulus response to stimulus signaling signal transduction cell communication multicellular organismal process cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis neurogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development system development developmental process plasma membrane bounded cell projection organization nervous system development generation of neurons anatomical structure morphogenesis neuron development plasma membrane tubulation membrane organization plasma membrane organization endomembrane system organization organelle organization cytoskeleton organization negative regulation of cellular component organization negative regulation of biological process negative regulation of transport negative regulation of endocytosis negative regulation of cellular process regulation of neuron projection development positive regulation of cellular component organization regulation of developmental process positive regulation of biological process positive regulation of developmental process dendrite development positive regulation of neuron projection development positive regulation of cell projection organization positive regulation of cellular process regulation of cell projection organization positive regulation of dendrite development regulation of dendrite development regulation of plasma membrane bounded cell projection organization actin cytoskeleton organization actin filament organization actin filament-based process supramolecular fiber organization receptor internalization postsynaptic neurotransmitter receptor internalization regulation of receptor internalization regulation of postsynaptic neurotransmitter receptor internalization regulation of biological quality regulation of receptor-mediated endocytosis protein-containing complex localization neurotransmitter receptor internalization regulation of postsynaptic membrane neurotransmitter receptor levels postsynaptic endocytosis receptor-mediated endocytosis	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane cellular anatomical entity postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane cellular anatomical entity postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region myelin sheath ruffle cell leading edge leading edge membrane plasma membrane bounded cell projection cell projection ruffle membrane cell projection membrane intracellular anatomical structure cytoplasm cytosol glutamatergic synapse membrane-bounded organelle intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane vesicle membrane cytoplasmic vesicle vesicle organelle membrane COPI-coated vesicle coated vesicle Golgi-associated vesicle photoreceptor ribbon synapse ribbon synapse presynapse presynaptic endocytic zone endosome endomembrane system perinuclear region of cytoplasm axon neuron projection axon terminus distal axon neuron projection terminus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR035743	PACSIN1/PACSIN2, SH3 domain	Domain
A, B, C	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A, B, C	IPR027267	AH/BAR domain superfamily	Homologous Superfamily
A, B, C	IPR037454	PACSIN1, F-BAR	Domain
A, B, C	IPR031160	F-BAR domain	Domain
A, B, C	IPR001452	SH3 domain	Domain
A, B, C	IPR001060	FCH domain	Domain
D, E	IPR035743	PACSIN1/PACSIN2, SH3 domain	Domain
D, E	IPR036028	SH3-like domain superfamily	Homologous Superfamily
D, E	IPR027267	AH/BAR domain superfamily	Homologous Superfamily
D, E	IPR037454	PACSIN1, F-BAR	Domain
D, E	IPR031160	F-BAR domain	Domain
D, E	IPR001452	SH3 domain	Domain
D, E	IPR001060	FCH 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 R01GM133198.