4UWA

Structure of the ryanodine receptor at resolution of 6.1 A in closed state

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	SPRY	e4uwaA4	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: SPRY	ECOD (1.6)
A	Ins145_P3_rec	e4uwaA1	A: beta duplicates or obligate multimers	X: beta-Trefoil (From Topology)	H: beta-Trefoil (From Topology)	T: beta-Trefoil	F: Ins145_P3_rec	ECOD (1.6)
A	MIR	e4uwaA2	A: beta duplicates or obligate multimers	X: beta-Trefoil (From Topology)	H: beta-Trefoil (From Topology)	T: beta-Trefoil	F: MIR	ECOD (1.6)
A	RyR	e4uwaA5	A: alpha duplicates or obligate multimers	X: RyR motifs (From Topology)	H: RyR motifs (From Topology)	T: RyR motifs	F: RyR	ECOD (1.6)
A	RYDR_ITPR_1	e4uwaA3	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: RYDR_ITPR_1	ECOD (1.6)
B	SPRY	e4uwaB7	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: SPRY	ECOD (1.6)
B	Ins145_P3_rec	e4uwaB2	A: beta duplicates or obligate multimers	X: beta-Trefoil (From Topology)	H: beta-Trefoil (From Topology)	T: beta-Trefoil	F: Ins145_P3_rec	ECOD (1.6)
B	MIR	e4uwaB3	A: beta duplicates or obligate multimers	X: beta-Trefoil (From Topology)	H: beta-Trefoil (From Topology)	T: beta-Trefoil	F: MIR	ECOD (1.6)
B	RyR	e4uwaB4	A: alpha duplicates or obligate multimers	X: RyR motifs (From Topology)	H: RyR motifs (From Topology)	T: RyR motifs	F: RyR	ECOD (1.6)
B	RYDR_ITPR_1	e4uwaB8	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: RYDR_ITPR_1	ECOD (1.6)
C	SPRY	e4uwaC7	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: SPRY	ECOD (1.6)
C	Ins145_P3_rec	e4uwaC2	A: beta duplicates or obligate multimers	X: beta-Trefoil (From Topology)	H: beta-Trefoil (From Topology)	T: beta-Trefoil	F: Ins145_P3_rec	ECOD (1.6)
C	MIR	e4uwaC3	A: beta duplicates or obligate multimers	X: beta-Trefoil (From Topology)	H: beta-Trefoil (From Topology)	T: beta-Trefoil	F: MIR	ECOD (1.6)
C	RyR	e4uwaC4	A: alpha duplicates or obligate multimers	X: RyR motifs (From Topology)	H: RyR motifs (From Topology)	T: RyR motifs	F: RyR	ECOD (1.6)
C	RYDR_ITPR_1	e4uwaC8	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: RYDR_ITPR_1	ECOD (1.6)
D	SPRY	e4uwaD7	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: SPRY	ECOD (1.6)
D	Ins145_P3_rec	e4uwaD2	A: beta duplicates or obligate multimers	X: beta-Trefoil (From Topology)	H: beta-Trefoil (From Topology)	T: beta-Trefoil	F: Ins145_P3_rec	ECOD (1.6)
D	MIR	e4uwaD3	A: beta duplicates or obligate multimers	X: beta-Trefoil (From Topology)	H: beta-Trefoil (From Topology)	T: beta-Trefoil	F: MIR	ECOD (1.6)
D	RyR	e4uwaD4	A: alpha duplicates or obligate multimers	X: RyR motifs (From Topology)	H: RyR motifs (From Topology)	T: RyR motifs	F: RyR	ECOD (1.6)
D	RYDR_ITPR_1	e4uwaD8	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: RYDR_ITPR_1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00622	SPRY domain (SPRY)	SPRY domain	-	Family
A, B, C, D	PF02815	MIR domain (MIR)	MIR domain	The MIR (protein mannosyltransferase, IP3R and RyR) domain is a domain that may have a ligand transferase function [1].	Domain
A, B, C, D	PF08709	Inositol 1,4,5-trisphosphate/ryanodine receptor (Ins145_P3_rec)	Inositol 1,4,5-trisphosphate/ryanodine receptor	This domain corresponds to the ligand binding region on inositol 1,4,5-trisphosphate receptor, and the N terminal region of the ryanodine receptor. Both receptors are involved in Ca2+ release. They can couple to the activation of neurotransmitter-ga ...	This domain corresponds to the ligand binding region on inositol 1,4,5-trisphosphate receptor, and the N terminal region of the ryanodine receptor. Both receptors are involved in Ca2+ release. They can couple to the activation of neurotransmitter-gated receptors and voltage-gated Ca2+ channels on the plasma membrane, thus allowing the endoplasmic reticulum discriminate between different types of neuronal activity [1].	Domain
A, B, C, D	PF01365	RIH domain (RYDR_ITPR)	RIH domain	-	Repeat
A, B, C, D	PF02026	RyR domain (RyR)	RyR domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	RYANODINE RECEPTOR 1	calcium channel activity monoatomic cation transmembrane transporter activity intracellularly ligand-gated monoatomic ion channel activity gated channel activity monoatomic ion channel activity intracellularly gated calcium channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity ligand-gated calcium channel activity inorganic cation transmembrane transporter activity calcium channel activity monoatomic cation transmembrane transporter activity intracellularly ligand-gated monoatomic ion channel activity gated channel activity monoatomic ion channel activity intracellularly gated calcium channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity ligand-gated calcium channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity ligand-gated monoatomic cation channel activity transmembrane transporter activity binding toxic substance binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding calcium-induced calcium release activity ryanodine-sensitive calcium-release channel activity protein binding calmodulin binding identical protein binding cation binding calcium ion binding metal ion binding ATP-gated ion channel activity voltage-gated calcium channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity transmembrane transporter binding disordered domain specific binding protein domain specific binding	multicellular organismal process system process muscle contraction muscle system process striated muscle contraction cellular response to nitrogen compound cellular response to stimulus response to stimulus cellular response to caffeine cellular response to organic cyclic compound response to nitrogen compound response to purine-containing compound response to alkaloid cellular response to chemical stimulus multicellular organismal process system process muscle contraction muscle system process striated muscle contraction cellular response to nitrogen compound cellular response to stimulus response to stimulus cellular response to caffeine cellular response to organic cyclic compound response to nitrogen compound response to purine-containing compound response to alkaloid cellular response to chemical stimulus response to chemical cellular process cellular response to alkaloid cellular response to purine-containing compound response to organic cyclic compound response to caffeine inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process calcium ion homeostasis cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis cellular response to metal ion response to metal ion cellular response to calcium ion response to calcium ion transport monoatomic ion transmembrane transport inorganic ion transmembrane transport establishment of localization calcium ion transport metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport monoatomic cation transport calcium ion transmembrane transport developmental process myotube cell development skeletal muscle fiber development cellular developmental process skeletal muscle tissue development animal organ development cell development tissue development muscle cell differentiation myotube differentiation striated muscle tissue development muscle structure development skeletal muscle organ development striated muscle cell development muscle cell development cell differentiation anatomical structure development muscle tissue development muscle organ development striated muscle cell differentiation skin development protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis bone maturation developmental maturation multicellular organism development skeletal system development ossification anatomical structure maturation ossification involved in bone maturation animal organ maturation bone development system development regulation of localization cellular localization regulation of cellular process negative regulation of biological process negative regulation of sequestering of calcium ion maintenance of location in cell negative regulation of cellular process regulation of sequestering of calcium ion regulation of biological process calcium ion transmembrane import into cytosol sequestering of calcium ion biological regulation maintenance of location release of sequestered calcium ion into cytosol sarcoplasmic reticulum calcium ion transport release of sequestered calcium ion into cytosol by sarcoplasmic reticulum release of sequestered calcium ion into cytosol by endoplasmic reticulum heart development heart morphogenesis circulatory system development anatomical structure morphogenesis outflow tract morphogenesis animal organ morphogenesis	membrane-bounded organelle intracellular anatomical structure organelle subcompartment cellular anatomical entity intracellular membrane-bounded organelle endomembrane system sarcoplasm intracellular organelle endoplasmic reticulum subcompartment terminal cisterna organelle endoplasmic reticulum sarcoplasmic reticulum cytoplasm membrane-bounded organelle intracellular anatomical structure organelle subcompartment cellular anatomical entity intracellular membrane-bounded organelle endomembrane system sarcoplasm intracellular organelle endoplasmic reticulum subcompartment terminal cisterna organelle endoplasmic reticulum sarcoplasmic reticulum cytoplasm membrane Z disc sarcomere I band intracellular non-membrane-bounded organelle contractile muscle fiber supramolecular fiber myofibril supramolecular polymer supramolecular complex non-membrane-bounded organelle cell periphery sarcolemma plasma membrane smooth endoplasmic reticulum organelle membrane bounding membrane of organelle nuclear outer membrane-endoplasmic reticulum membrane network sarcoplasmic reticulum membrane endoplasmic reticulum membrane protein-containing complex membrane protein complex ryanodine receptor complex transporter complex endoplasmic reticulum protein-containing complex plasma membrane protein complex voltage-gated calcium channel complex cation channel complex transmembrane transporter complex calcium channel complex monoatomic ion channel complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036300	Mir domain superfamily	Homologous Superfamily
A, B, C, D	IPR000699	RIH domain	Domain
A, B, C, D	IPR013662	RyR/IP3R Homology associated domain	Domain
A, B, C, D	IPR016093	MIR motif	Domain
A, B, C, D	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A, B, C, D	IPR003877	SPRY domain	Domain
A, B, C, D	IPR001870	B30.2/SPRY domain	Domain
A, B, C, D	IPR009460	Ryanodine Receptor TM 4-6	Domain
A, B, C, D	IPR015925	Ryanodine/Inositol 1,4,5-trisphosphate receptor	Family
A, B, C, D	IPR048581	Ryanodine receptor, junctional solenoid domain	Domain
A, B, C, D	IPR035910	RyR/IP3 receptor binding core, RIH domain superfamily	Homologous Superfamily
A, B, C, D	IPR003032	Ryanodine receptor Ryr	Domain
A, B, C, D	IPR035761	Ryanodine receptor, SPRY domain 1	Domain
A, B, C, D	IPR014821	Inositol 1,4,5-trisphosphate/ryanodine receptor	Domain
A, B, C, D	IPR035764	Ryanodine receptor, SPRY domain 2	Domain
A, B, C, D	IPR013333	Ryanodine receptor	Family
A, B, C, D	IPR043136	B30.2/SPRY domain superfamily	Homologous Superfamily
A, B, C, D	IPR011992	EF-hand domain pair	Homologous Superfamily
A, B, C, D	IPR005821	Ion transport domain	Domain
A, B, C, D	IPR035762	Ryanodine receptor, SPRY domain 3	Domain