4UYK

Crystal structure of a Signal Recognition Particle Alu domain in the elongation arrest conformation

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Signal recognition particle alu RNA binding heterodimer SRP9/14	8035086	3000976	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Signal recognition particle alu RNA binding heterodimer SRP9/14	8035087	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)
A	SRP9-21	e4uykA1	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)
B	SRP14	e4uykB1	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)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.720.10	Alpha Beta	2-Layer Sandwich	Signal recognition particle alu RNA binding heterodimer, srp9/1	Signal recognition particle alu RNA binding heterodimer, srp9/1	CATH (4.3.0)
B	3.30.720.10	Alpha Beta	2-Layer Sandwich	Signal recognition particle alu RNA binding heterodimer, srp9/1	Signal recognition particle alu RNA binding heterodimer, srp9/1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	SIGNAL RECOGNITION PARTICLE 9 KDA PROTEIN	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
B	SIGNAL RECOGNITION PARTICLE 14 KDA PROTEIN	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
C [auth R]	SRP RNA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR008832	Signal recognition particle SRP9	Family
A	IPR009018	Signal recognition particle, SRP9/SRP14 subunit	Homologous Superfamily
A	IPR039432	SRP9 domain	Domain
A	IPR039914	Signal recognition particle SRP9-like	Family
B	IPR003210	Signal recognition particle, SRP14 subunit	Family
B	IPR009018	Signal recognition particle, SRP9/SRP14 subunit	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P49458	breast carcinoma
B	Pharos: P37108	B-cell chronic lymphocytic leukemia ovarian cancer endometrial carcinoma pancreatic ductal adenocarcinoma Ewing sarcoma plasma cell myeloma

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.