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]	PF02290	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: PF02290	ECOD (1.6)
K [auth B]	PF01922	e1ry1B1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: PF01922	ECOD (1.6)
L [auth U]	PF02881	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: PF02881	ECOD (1.6)
L [auth U]	PF00448	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: PF00448	ECOD (1.6)
M [auth W]	PF02978	e1ry1W1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF02978	ECOD (1.6)
I [auth C]	PF05486	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: PF05486	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	extracellular region cellular anatomical entity 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 extracellular region cellular anatomical entity 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	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol signal recognition particle protein-containing complex ribonucleoprotein complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle intracellular anatomical structure cytoplasm cellular anatomical entity cytosol signal recognition particle protein-containing complex ribonucleoprotein complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle signal recognition particle, endoplasmic reticulum targeting nuclear body nucleoplasm
L [auth U]	SRP54NG	endoplasmic reticulum signal peptide binding signal sequence binding binding peptide binding RNA binding 7S RNA 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 endoplasmic reticulum signal peptide binding signal sequence binding binding peptide binding RNA binding 7S RNA 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 nitrogen compound transport transport protein targeting localization SRP-dependent cotranslational protein targeting to membrane protein transmembrane transport cellular macromolecule localization establishment of localization in cell cotranslational protein targeting to membrane establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum protein localization establishment of protein localization cellular localization nitrogen compound transport transport protein targeting localization SRP-dependent cotranslational protein targeting to membrane protein transmembrane transport cellular macromolecule localization establishment of localization in cell cotranslational protein targeting to membrane establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum establishment of protein localization to membrane intracellular protein transmembrane transport organic substance transport intracellular transport localization within membrane protein localization to membrane establishment of localization protein targeting to membrane transmembrane transport establishment of protein localization to organelle protein transport macromolecule localization protein localization to organelle SRP-dependent cotranslational protein targeting to membrane, translocation cellular process intracellular protein transport protein targeting to ER	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol signal recognition particle protein-containing complex ribonucleoprotein complex
M [auth W]	SRP54M	endoplasmic reticulum signal peptide binding signal sequence binding binding peptide binding 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 endoplasmic reticulum signal peptide binding signal sequence binding binding peptide binding 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 organic cyclic compound binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding RNA binding 7S RNA 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 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 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 developmental process myeloid leukocyte differentiation cellular developmental process hemopoiesis cell development granulocyte differentiation myeloid cell differentiation cell differentiation anatomical structure development leukocyte differentiation multicellular organismal process digestive system development gland development animal organ development exocrine pancreas development multicellular organism development pancreas development exocrine system development system development nitrogen compound transport transport protein transmembrane transport establishment of localization in cell intracellular protein transmembrane transport organic substance transport intracellular transport transmembrane transport protein transport SRP-dependent cotranslational protein targeting to membrane, translocation intracellular protein transport	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cytoplasm cytosol signal recognition particle protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex 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	detection of light stimulus response to light stimulus detection of external stimulus response to stimulus response to external stimulus detection of abiotic stimulus absorption of visible light detection of stimulus light absorption response to abiotic stimulus response to radiation cellular process multicellular organismal process sensory perception of light stimulus detection of light stimulus response to light stimulus detection of external stimulus response to stimulus response to external stimulus detection of abiotic stimulus absorption of visible light detection of stimulus light absorption response to abiotic stimulus response to radiation cellular process multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception cellular response to stimulus regulation of cellular process signaling cellular response to environmental stimulus cell communication cellular response to light stimulus signal transduction rhodopsin mediated signaling pathway phototransduction regulation of biological process biological regulation detection of visible light cellular response to radiation G protein-coupled receptor signaling pathway cellular response to abiotic stimulus phototransduction, visible light	membrane-bounded organelle non-motile cilium membrane plasma membrane cilium 9+0 non-motile cilium neuron projection cellular anatomical entity ciliary membrane photoreceptor outer segment membrane photoreceptor outer segment plasma membrane bounded cell projection cell periphery cell projection membrane-bounded organelle non-motile cilium membrane plasma membrane cilium 9+0 non-motile cilium neuron projection cellular anatomical entity ciliary membrane photoreceptor outer segment membrane photoreceptor outer segment plasma membrane bounded cell projection cell periphery cell projection bounding membrane of organelle 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 cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of translational elongation negative regulation of translation organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of translational elongation negative regulation of translation organic substance metabolic process organic substance biosynthetic process 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 organonitrogen compound metabolic process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of translational elongation negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process 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	intracellular anatomical structure cytoplasm cellular anatomical entity 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 intracellular anatomical structure cytoplasm cellular anatomical entity 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]	IPR004125	Signal recognition particle, SRP54 subunit, M-domain	Domain
M [auth W]	IPR003593	AAA+ ATPase domain	Domain
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]	IPR022941	Signal recognition particle, SRP54 subunit	Family
M [auth W]	IPR042101	Signal recognition particle SRP54, N-terminal domain superfamily	Homologous Superfamily
M [auth W]	IPR006325	Signal recognition particle, SRP54 subunit, eukaryotic	Family
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]	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