4UE5

Structural basis for targeting and elongation arrest of Bacillus signal recognition particle

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
B	SCOP2 Family	Signal recognition particle alu RNA binding heterodimer SRP9/14	8077810	4001167	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Signal recognition particle alu RNA binding heterodimer SRP9/14	8077811	3000976	SCOP2 (2022-06-29)
C	SCOP2 Family	RNA-binding signal recognition particle 68-like	8046406	4005065	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	TPR-like	8053750	3001345	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	PF02978	e4ue5D3	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF02978	ECOD (1.6)
D	PF02881	e4ue5D2	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)
D	PF00448	e4ue5D1	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)
B	PF02290	e4ue5B1	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)
C	PF16969	e4ue5C1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF16969	ECOD (1.6)
E	PF05486	e4ue5E1	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)
F	PF01922	e4ue5F1	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: PF01922	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D	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
D	PF02978	Signal peptide binding domain (SRP_SPB)	Signal peptide binding domain	-	Domain
D	PF02881	SRP54-type protein, helical bundle domain (SRP54_N)	SRP54-type protein, helical bundle domain	-	Domain
B	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
C	PF16969	RNA-binding signal recognition particle 68 (SRP68)	RNA-binding signal recognition particle 68	-	Family
E	PF05486	Signal recognition particle 9 kDa protein (SRP9) (SRP9-21)	Signal recognition particle 9 kDa protein (SRP9)	This family consists of several eukaryotic SRP9 proteins. SRP9 together with the Alu-homologous region of 7SL RNA and SRP14 comprise the "Alu domain" of SRP, which mediates pausing of synthesis of ribosome associated nascent polypeptides that have be ...	This family consists of several eukaryotic SRP9 proteins. SRP9 together with the Alu-homologous region of 7SL RNA and SRP14 comprise the "Alu domain" of SRP, which mediates pausing of synthesis of ribosome associated nascent polypeptides that have been engaged by the targeting domain of SRP [1]. This family also contains the homologous fungal SRP21 [2].	Domain
F	PF01922	SRP19 protein (SRP19)	SRP19 protein	-	Family
G [auth S]	PF00001	7 transmembrane receptor (rhodopsin family) (7tm_1)	7 transmembrane receptor (rhodopsin family)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D	SIGNAL RECOGNITION PARTICLE 54 KDA PROTEIN	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 GDP 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	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 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 cellular process 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 protein localization establishment of protein localization cellular localization protein targeting establishment of localization localization establishment of protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to organelle establishment of protein localization to endoplasmic reticulum protein localization to endoplasmic reticulum protein targeting to ER cellular component organization cellular component biogenesis cellular component assembly SRP-dependent cotranslational protein targeting to membrane protein-containing complex assembly cotranslational protein targeting to membrane cellular component organization or biogenesis SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition protein-containing complex organization establishment of protein localization to membrane localization within membrane protein localization to membrane protein targeting to membrane 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
A	7S RNA	-	-	-
B	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	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol signal recognition particle protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex
C	SIGNAL RECOGNITION PARTICLE SUBUNIT SRP68	endoplasmic reticulum signal peptide binding signal sequence binding binding peptide binding ribonucleoprotein complex binding protein-containing complex binding signal recognition particle 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	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol 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 intracellular anatomical structure cytoplasm cellular anatomical entity cytosol 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 protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex endoplasmic reticulum endomembrane system
E	SRP9	RNA binding 7S RNA binding 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
F	SIGNAL RECOGNITION PARTICLE 9 KDA PROTEIN	RNA binding 7S RNA binding binding organic cyclic compound binding nucleic acid binding	protein localization establishment of protein localization cellular localization protein targeting cellular component organization cellular component biogenesis localization cellular component assembly SRP-dependent cotranslational protein targeting to membrane cellular macromolecule localization protein-containing complex assembly cotranslational protein targeting to membrane cellular component organization or biogenesis establishment of protein localization to endoplasmic reticulum protein localization establishment of protein localization cellular localization protein targeting cellular component organization cellular component biogenesis localization cellular component assembly SRP-dependent cotranslational protein targeting to membrane cellular macromolecule localization protein-containing complex assembly cotranslational protein targeting to membrane 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 membrane localization within membrane protein localization to membrane establishment of localization protein targeting to membrane establishment of protein localization to organelle macromolecule localization protein localization to organelle cellular process protein targeting to ER	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle signal recognition particle protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex cytoplasm nucleoplasm
G [auth S]	SIGNAL SEQUENCE	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 cellular response to stimulus cellular response to 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 cellular response to stimulus cellular response to light stimulus cellular response to radiation cellular response to abiotic stimulus cellular response to environmental stimulus multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception phototransduction regulation of biological process regulation of cellular process signaling biological regulation cell communication signal transduction G protein-coupled receptor signaling pathway rhodopsin mediated signaling pathway detection of visible light 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D	IPR000897	Signal recognition particle, SRP54 subunit, GTPase domain	Domain
D	IPR004125	Signal recognition particle, SRP54 subunit, M-domain	Domain
D	IPR003593	AAA+ ATPase domain	Domain
D	IPR013822	Signal recognition particle SRP54, helical bundle	Domain
D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
D	IPR022941	Signal recognition particle, SRP54 subunit	Family
D	IPR036225	SRP/SRP receptor, N-terminal	Homologous Superfamily
D	IPR042101	Signal recognition particle SRP54, N-terminal domain superfamily	Homologous Superfamily
D	IPR006325	Signal recognition particle, SRP54 subunit, eukaryotic	Family
D	IPR036891	Signal recognition particle, SRP54 subunit, M-domain superfamily	Homologous Superfamily
B	IPR003210	Signal recognition particle, SRP14 subunit	Family
B	IPR009018	Signal recognition particle, SRP9/SRP14 subunit	Homologous Superfamily
C	IPR026258	Signal recognition particle subunit SRP68	Family
C	IPR038253	SRP68, N-terminal domain superfamily	Homologous Superfamily
C	IPR034652	Signal recognition particle subunit SRP68, RNA-binding domain	Domain
E	IPR008832	Signal recognition particle SRP9	Family
E	IPR009018	Signal recognition particle, SRP9/SRP14 subunit	Homologous Superfamily
E	IPR039432	SRP9 domain	Domain
E	IPR039914	Signal recognition particle SRP9-like	Family
F	IPR002778	Signal recognition particle, SRP19 subunit	Family
F	IPR036521	Signal recognition particle, subunit SRP19-like superfamily	Homologous Superfamily
G [auth S]	IPR000732	Rhodopsin	Family
G [auth S]	IPR027430	Visual pigments (opsins) retinal binding site	Binding Site
G [auth S]	IPR019477	Rhodopsin, N-terminal	Domain
G [auth S]	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
G [auth S]	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
G [auth S]	IPR001760	Opsin	Family