4UWA | pdb_00004uwa

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

External Resource: Annotation


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ASPRYe4uwaA4 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Concanavalin A-like lectins/glucanasesF: SPRYECOD (1.6)
AIns145_P3_rece4uwaA1 A: beta duplicates or obligate multimersX: beta-Trefoil (From Topology)H: beta-Trefoil (From Topology)T: beta-TrefoilF: Ins145_P3_recECOD (1.6)
AMIRe4uwaA2 A: beta duplicates or obligate multimersX: beta-Trefoil (From Topology)H: beta-Trefoil (From Topology)T: beta-TrefoilF: MIRECOD (1.6)
ARyRe4uwaA5 A: alpha duplicates or obligate multimersX: RyR motifs (From Topology)H: RyR motifs (From Topology)T: RyR motifsF: RyRECOD (1.6)
ARYDR_ITPR_1e4uwaA3 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: RYDR_ITPR_1ECOD (1.6)
CSPRYe4uwaC7 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Concanavalin A-like lectins/glucanasesF: SPRYECOD (1.6)
CIns145_P3_rece4uwaC2 A: beta duplicates or obligate multimersX: beta-Trefoil (From Topology)H: beta-Trefoil (From Topology)T: beta-TrefoilF: Ins145_P3_recECOD (1.6)
CMIRe4uwaC3 A: beta duplicates or obligate multimersX: beta-Trefoil (From Topology)H: beta-Trefoil (From Topology)T: beta-TrefoilF: MIRECOD (1.6)
CRyRe4uwaC4 A: alpha duplicates or obligate multimersX: RyR motifs (From Topology)H: RyR motifs (From Topology)T: RyR motifsF: RyRECOD (1.6)
CRYDR_ITPR_1e4uwaC8 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: RYDR_ITPR_1ECOD (1.6)
DSPRYe4uwaD7 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Concanavalin A-like lectins/glucanasesF: SPRYECOD (1.6)
DIns145_P3_rece4uwaD2 A: beta duplicates or obligate multimersX: beta-Trefoil (From Topology)H: beta-Trefoil (From Topology)T: beta-TrefoilF: Ins145_P3_recECOD (1.6)
DMIRe4uwaD3 A: beta duplicates or obligate multimersX: beta-Trefoil (From Topology)H: beta-Trefoil (From Topology)T: beta-TrefoilF: MIRECOD (1.6)
DRyRe4uwaD4 A: alpha duplicates or obligate multimersX: RyR motifs (From Topology)H: RyR motifs (From Topology)T: RyR motifsF: RyRECOD (1.6)
DRYDR_ITPR_1e4uwaD8 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: RYDR_ITPR_1ECOD (1.6)
BSPRYe4uwaB7 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Concanavalin A-like lectins/glucanasesF: SPRYECOD (1.6)
BIns145_P3_rece4uwaB2 A: beta duplicates or obligate multimersX: beta-Trefoil (From Topology)H: beta-Trefoil (From Topology)T: beta-TrefoilF: Ins145_P3_recECOD (1.6)
BMIRe4uwaB3 A: beta duplicates or obligate multimersX: beta-Trefoil (From Topology)H: beta-Trefoil (From Topology)T: beta-TrefoilF: MIRECOD (1.6)
BRyRe4uwaB4 A: alpha duplicates or obligate multimersX: RyR motifs (From Topology)H: RyR motifs (From Topology)T: RyR motifsF: RyRECOD (1.6)
BRYDR_ITPR_1e4uwaB8 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: RYDR_ITPR_1ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D
PF00622SPRY domain (SPRY)SPRY domainSPRY Domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein-interaction module involved in many important signalling pathways like RNA processing, regulation of ...SPRY Domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein-interaction module involved in many important signalling pathways like RNA processing, regulation of histone H3 methylation, innate immunity or embryonic development [1,2,3,4]. It can be divided into 11 subfamilies based on amino acid sequence similarity or the presence of additional protein domains. The greater SPRY family is divided into the SPRY/B30.2 (which contains a PRY extension at the N-terminal) and SPRY-only sub-families which are preceded by a subdomain that is structurally similar to the PRY region [2]. SPRY/B30.2 structures revealed a bent beta-sandwich fold comprised of two beta-sheets. Distant homologues are domains in butyrophilin/ marenostrin/pyrin [1].
Domain
A, B, C, D
PF02815MIR domain (MIR)MIR domainThe MIR (protein mannosyltransferase, IP3R and RyR) domain is a domain that may have a ligand transferase function [1]. Domain
A, B, C, D
PF08709Inositol 1,4,5-trisphosphate/ryanodine receptor (Ins145_P3_rec)Inositol 1,4,5-trisphosphate/ryanodine receptorThis 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
PF01365RIH domain (RYDR_ITPR)RIH domain- Repeat
A, B, C, D
PF02026RyR domain (RyR)RyR domain- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D
RYANODINE RECEPTOR 1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D
IPR036300Mir domain superfamilyHomologous Superfamily
A, B, C, D
IPR000699RIH domainDomain
A, B, C, D
IPR013662RyR/IP3R Homology associated domainDomain
A, B, C, D
IPR016093MIR motifDomain
A, B, C, D
IPR013320Concanavalin A-like lectin/glucanase domain superfamilyHomologous Superfamily
A, B, C, D
IPR003877SPRY domainDomain
A, B, C, D
IPR001870B30.2/SPRY domainDomain
A, B, C, D
IPR009460Ryanodine Receptor TM 4-6Domain
A, B, C, D
IPR015925Ryanodine/Inositol 1,4,5-trisphosphate receptorFamily
A, B, C, D
IPR048581Ryanodine receptor, junctional solenoid domainDomain
A, B, C, D
IPR035910RyR/IP3 receptor binding core, RIH domain superfamilyHomologous Superfamily
A, B, C, D
IPR003032Ryanodine receptor RyrDomain
A, B, C, D
IPR035761Ryanodine receptor, SPRY domain 1Domain
A, B, C, D
IPR014821Inositol 1,4,5-trisphosphate/ryanodine receptorDomain
A, B, C, D
IPR035764Ryanodine receptor, SPRY domain 2Domain
A, B, C, D
IPR013333Ryanodine receptorFamily
A, B, C, D
IPR043136B30.2/SPRY domain superfamilyHomologous Superfamily
A, B, C, D
IPR011992EF-hand domain pairHomologous Superfamily
A, B, C, D
IPR005821Ion transport domainDomain
A, B, C, D
IPR035762Ryanodine receptor, SPRY domain 3Domain

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

ChainsExternal LinkComment
A, B, C, D
PDBTMAnnotated as membrane protein by PDBTM