1RY1

Structure of the signal recognition particle interacting with the elongation-arrested ribosome

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
J [auth D]	d1ry1d_	Low resolution protein structures	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	(Canis lupus familiaris ) [TaxId: 9615 ],	SCOPe (2.08)
K [auth B]	d1ry1b_	Low resolution protein structures	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	(Canis lupus familiaris ) [TaxId: 9615 ],	SCOPe (2.08)
L [auth U]	d1ry1u_	Low resolution protein structures	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	(Canis lupus familiaris ) [TaxId: 9615 ],	SCOPe (2.08)
M [auth W]	d1ry1w_	Low resolution protein structures	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	(Canis lupus familiaris ) [TaxId: 9615 ],	SCOPe (2.08)
N [auth S]	d1ry1s_	Low resolution protein structures	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	wheat (Triticum aestivum ) [TaxId: 4565 ],	SCOPe (2.08)
I [auth C]	d1ry1c_	Low resolution protein structures	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	Signal recognition particle (SRP) complex	(Canis lupus familiaris ) [TaxId: 9615 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
J [auth D]	SCOP2B Superfamily	Signal recognition particle alu RNA binding heterodimer, SRP9/14	8035087	3000976	SCOP2B (2022-06-29)
K [auth B]	SCOP2B Superfamily	SRP19	8037027	3000831	SCOP2B (2022-06-29)
L [auth U]	SCOP2B Superfamily	Simibi-like P-loop NTPases	8089712	3002018	SCOP2B (2022-06-29)
L [auth U]	SCOP2B Superfamily	SRP/SRP receptor N-terminal domain-like	8089711	3001834	SCOP2B (2022-06-29)
I [auth C]	SCOP2B Superfamily	Signal recognition particle alu RNA binding heterodimer, SRP9/14	8035086	3000976	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)
J [auth D]	SRP14	e1ry1D1	A: a+b two layers	X: SRP9/14-like	H: Signal recognition particle alu RNA binding heterodimer SRP9/14-related (From Topology)	T: Signal recognition particle alu RNA binding heterodimer SRP9/14-related	F: SRP14	ECOD (1.6)
K [auth B]	SRP19	e1ry1B1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: SRP19	ECOD (1.6)
L [auth U]	SRP54_N	e1ry1U1	A: alpha bundles	X: Domain of the SRP/SRP receptor G proteins-like	H: Domain of the SRP/SRP receptor G-proteins (From Topology)	T: Domain of the SRP/SRP receptor G-proteins	F: SRP54_N	ECOD (1.6)
L [auth U]	SRP54	e1ry1U2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: SRP54	ECOD (1.6)
M [auth W]	SRP_SPB	e1ry1W1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: SRP_SPB	ECOD (1.6)
I [auth C]	SRP9-21	e1ry1C1	A: a+b two layers	X: SRP9/14-like	H: Signal recognition particle alu RNA binding heterodimer SRP9/14-related (From Topology)	T: Signal recognition particle alu RNA binding heterodimer SRP9/14-related	F: SRP9-21	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
J [auth D]	PF02290	Signal recognition particle 14kD protein (SRP14)	Signal recognition particle 14kD protein	The signal recognition particle (SRP) is a multimeric protein involved in targeting secretory proteins to the rough endoplasmic reticulum membrane. SRP14 and SRP9 form a complex essential for SRP RNA binding.	Domain
K [auth B]	PF01922	SRP19 protein (SRP19)	SRP19 protein	-	Family
L [auth U]	PF00448	SRP54-type protein, GTPase domain (SRP54)	SRP54-type protein, GTPase domain	This family includes relatives of the G-domain of the SRP54 family of proteins.	Domain
L [auth U]	PF02881	SRP54-type protein, helical bundle domain (SRP54_N)	SRP54-type protein, helical bundle domain	-	Domain
M [auth W]	PF02978	Signal peptide binding domain (SRP_SPB)	Signal peptide binding domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth E]	SRP Alu domain	-	-	-
J [auth D]	SRP14	endoplasmic reticulum signal peptide binding signal sequence binding binding peptide binding RNA binding 7S RNA binding organic cyclic compound binding nucleic acid binding	protein localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane protein localization to membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to organelle protein localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane protein localization to membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to organelle cotranslational protein targeting to membrane cellular process establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum protein targeting to ER	cellular anatomical structure extracellular region membrane-bounded organelle vesicle lumen intracellular anatomical structure intracellular vesicle membrane-enclosed lumen cytoplasmic vesicle lumen secretory granule lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen intracellular organelle cytoplasmic vesicle cellular anatomical structure extracellular region membrane-bounded organelle vesicle lumen intracellular anatomical structure intracellular vesicle membrane-enclosed lumen cytoplasmic vesicle lumen secretory granule lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen intracellular organelle cytoplasmic vesicle organelle lumen organelle secretory granule secretory vesicle cytoplasm vesicle cytosol signal recognition particle protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex ficolin-1-rich granule ficolin-1-rich granule lumen nucleus
K [auth B]	SRP19	RNA binding 7S RNA binding binding organic cyclic compound binding nucleic acid binding	protein localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane protein localization to membrane establishment of localization protein targeting to membrane localization cellular macromolecule localization macromolecule localization cotranslational protein targeting to membrane cellular process protein localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane protein localization to membrane establishment of localization protein targeting to membrane localization cellular macromolecule localization macromolecule localization cotranslational protein targeting to membrane cellular process cellular component organization cellular component biogenesis cellular component assembly SRP-dependent cotranslational protein targeting to membrane protein-containing complex assembly cellular component organization or biogenesis establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition protein-containing complex organization establishment of protein localization to organelle protein localization to organelle protein targeting to ER	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol signal recognition particle protein-containing complex ribonucleoprotein complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol signal recognition particle protein-containing complex ribonucleoprotein complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle membraneless organelle nuclear lumen signal recognition particle, endoplasmic reticulum targeting nuclear body nucleoplasm
L [auth U]	SRP54NG	RNA binding 7S RNA binding binding organic cyclic compound binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity guanyl nucleotide binding RNA binding 7S RNA binding binding organic cyclic compound binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding GTPase activity	protein localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane protein localization to membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to organelle protein localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane protein localization to membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to organelle cotranslational protein targeting to membrane cellular process establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum protein targeting to ER	signal recognition particle protein-containing complex cellular anatomical structure intracellular anatomical structure ribonucleoprotein complex cytoplasm
M [auth W]	SRP54M	RNA binding 7S RNA binding binding organic cyclic compound binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity ribonucleoprotein complex binding RNA binding 7S RNA binding binding organic cyclic compound binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity ribonucleoprotein complex binding protein-containing complex binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding GTPase activity	developmental process multicellular organismal process digestive system development gland development animal organ development exocrine pancreas development multicellular organism development pancreas development anatomical structure development exocrine system development system development protein localization establishment of protein localization cellular localization developmental process multicellular organismal process digestive system development gland development animal organ development exocrine pancreas development multicellular organism development pancreas development anatomical structure development exocrine system development system development protein localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane protein localization to membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to organelle cotranslational protein targeting to membrane cellular process establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum protein targeting to ER cell chemotaxis cellular response to stimulus chemotaxis response to stimulus neutrophil chemotaxis response to external stimulus neutrophil migration granulocyte migration leukocyte migration cellular response to chemical stimulus taxis immune system process granulocyte chemotaxis response to chemical myeloid leukocyte migration cell migration cell motility leukocyte chemotaxis locomotion myeloid leukocyte differentiation cellular developmental process hemopoiesis cell development granulocyte differentiation myeloid cell differentiation cell differentiation leukocyte differentiation	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen signal recognition particle protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex cytoplasm endoplasmic reticulum endomembrane system
N [auth S]	signal sequence peptide	G protein-coupled photoreceptor activity molecular transducer activity photoreceptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity vitamin binding binding retinal binding isoprenoid binding retinoid binding lipid binding 11-cis retinal binding small molecule binding G protein-coupled photoreceptor activity molecular transducer activity photoreceptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity vitamin binding binding retinal binding isoprenoid binding retinoid binding lipid binding 11-cis retinal binding small molecule binding cation binding ion binding metal ion binding	cellular response to stimulus response to light stimulus regulation of cellular process response to stimulus signaling detection of abiotic stimulus cellular response to environmental stimulus cell communication cellular response to light stimulus signal transduction detection of light stimulus phototransduction detection of external stimulus regulation of biological process cellular response to stimulus response to light stimulus regulation of cellular process response to stimulus signaling detection of abiotic stimulus cellular response to environmental stimulus cell communication cellular response to light stimulus signal transduction detection of light stimulus phototransduction detection of external stimulus regulation of biological process biological regulation detection of visible light response to external stimulus cellular response to radiation detection of stimulus response to radiation response to abiotic stimulus cellular process G protein-coupled receptor signaling pathway cellular response to abiotic stimulus G protein-coupled opsin signaling pathway phototransduction, visible light absorption of visible light light absorption multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception	membrane-bounded organelle non-motile cilium membrane plasma membrane cilium 9+0 non-motile cilium neuron projection ciliary membrane photoreceptor outer segment membrane photoreceptor outer segment plasma membrane bounded cell projection cell periphery cell projection bounding membrane of organelle membrane-bounded organelle non-motile cilium membrane plasma membrane cilium 9+0 non-motile cilium neuron projection ciliary membrane photoreceptor outer segment membrane photoreceptor outer segment plasma membrane bounded cell projection cell periphery cell projection bounding membrane of organelle cellular anatomical structure photoreceptor cell cilium organelle plasma membrane region organelle membrane cell projection membrane photoreceptor disc membrane photoreceptor inner segment membrane photoreceptor inner segment
B [auth A]	SRP S domain	-	-	-
C [auth M]	SRP RNA	-	-	-
D [auth N]	SRP RNA	-	-	-
E [auth O]	SRP RNA	-	-	-
F [auth P]	SRP RNA	-	-	-
G [auth Q]	SRP RNA	-	-	-
H [auth R]	SRP RNA	-	-	-
I [auth C]	SRP9	ribonucleoprotein complex binding protein-containing complex binding binding signal recognition particle binding RNA binding 7S RNA binding organic cyclic compound binding nucleic acid binding	regulation of cellular process negative regulation of biological process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of translational elongation negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process negative regulation of metabolic process regulation of cellular process negative regulation of biological process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of translational elongation negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of translational elongation regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process translational elongation regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process protein localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane protein localization to membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to organelle cotranslational protein targeting to membrane establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum protein targeting to ER	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol signal recognition particle protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex membrane-bounded organelle organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system cellular anatomical structure intracellular anatomical structure cytoplasm cytosol signal recognition particle protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex membrane-bounded organelle organelle subcompartment membrane membrane protein complex intracellular membrane-bounded organelle endomembrane system rough endoplasmic reticulum endoplasmic reticulum subcompartment intracellular organelle bounding membrane of organelle rough endoplasmic reticulum membrane organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum signal recognition particle receptor complex organelle membrane endoplasmic reticulum protein-containing complex endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
J [auth D]	IPR003210	Signal recognition particle, SRP14 subunit	Family
J [auth D]	IPR009018	Signal recognition particle, SRP9/SRP14 subunit	Homologous Superfamily
K [auth B]	IPR002778	Signal recognition particle, SRP19 subunit	Family
K [auth B]	IPR036521	Signal recognition particle, subunit SRP19-like superfamily	Homologous Superfamily
L [auth U]	IPR000897	Signal recognition particle, SRP54 subunit, GTPase domain	Domain
L [auth U]	IPR022941	Signal recognition particle, SRP54 subunit	Family
L [auth U]	IPR036225	SRP/SRP receptor, N-terminal	Homologous Superfamily
L [auth U]	IPR004125	Signal recognition particle, SRP54 subunit, M-domain	Domain
L [auth U]	IPR042101	Signal recognition particle SRP54, N-terminal domain superfamily	Homologous Superfamily
L [auth U]	IPR003593	AAA+ ATPase domain	Domain
L [auth U]	IPR004780	Signal recognition particle protein	Family
L [auth U]	IPR013822	Signal recognition particle SRP54, helical bundle	Domain
L [auth U]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
L [auth U]	IPR036891	Signal recognition particle, SRP54 subunit, M-domain superfamily	Homologous Superfamily
M [auth W]	IPR000897	Signal recognition particle, SRP54 subunit, GTPase domain	Domain
M [auth W]	IPR022941	Signal recognition particle, SRP54 subunit	Family
M [auth W]	IPR004125	Signal recognition particle, SRP54 subunit, M-domain	Domain
M [auth W]	IPR042101	Signal recognition particle SRP54, N-terminal domain superfamily	Homologous Superfamily
M [auth W]	IPR003593	AAA+ ATPase domain	Domain
M [auth W]	IPR006325	Signal recognition particle, SRP54 subunit, eukaryotic	Family
M [auth W]	IPR013822	Signal recognition particle SRP54, helical bundle	Domain
M [auth W]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
M [auth W]	IPR036891	Signal recognition particle, SRP54 subunit, M-domain superfamily	Homologous Superfamily
N [auth S]	IPR000732	Rhodopsin	Family
N [auth S]	IPR027430	Visual pigments (opsins) retinal binding site	Binding Site
N [auth S]	IPR019477	Rhodopsin, N-terminal	Domain
N [auth S]	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
N [auth S]	IPR050125	G-protein coupled receptor opsins	Family
N [auth S]	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
N [auth S]	IPR001760	Opsin	Family
I [auth C]	IPR008832	Signal recognition particle SRP9	Family
I [auth C]	IPR009018	Signal recognition particle, SRP9/SRP14 subunit	Homologous Superfamily
I [auth C]	IPR039432	SRP9 domain	Domain
I [auth C]	IPR039914	Signal recognition particle SRP9-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
J [auth D]	Pharos: P37108	B-cell chronic lymphocytic leukemia ovarian cancer endometrial carcinoma pancreatic ductal adenocarcinoma Ewing sarcoma plasma cell myeloma
K [auth B]	Pharos: P09132	colorectal adenoma colorectal cancer
I [auth C]	Pharos: P49458	breast carcinoma