1MFQ | pdb_00001mfq

Crystal Structure Analysis of a Ternary S-Domain Complex of Human Signal Recognition Particle

External Resource: Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d1mfqc_	All alpha proteins	Signal peptide-binding domain	Signal peptide-binding domain	Signal peptide-binding domain	SRP54M	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1mfqb_	Alpha and beta proteins (a+b)	SRP19	SRP19	SRP19	SRP19	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Signal peptide binding domain-like	8057742	3001939	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SRP19	8037027	3000831	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)
C	Homeodomain	e1mfqC1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Homeodomain	ECOD (v294.1)
B	SRP19	e1mfqB1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: YozE-like	T: Ribbon-helix-helix	F: SRP19	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.10.260.30	Mainly Alpha	Orthogonal Bundle	434 Repressor (Amino-terminal Domain)	Signal recognition particle, SRP54 subunit, M-domain	CATH (4.3.0)
B	3.30.56.30	Alpha Beta	2-Layer Sandwich	Phenylalanyl-tRNA Synthetase	Chain B, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	PF02978	Signal peptide binding domain (SRP_SPB)	Signal peptide binding domain		Domain
B	PF01922	SRP19 protein (SRP19)	SRP19 protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	signal recognition particle 54kDa protein	endoplasmic reticulum signal peptide binding signal sequence binding binding peptide binding ribonucleoprotein complex binding protein-containing complex binding RNA binding nucleic acid binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding endoplasmic reticulum signal peptide binding signal sequence binding binding peptide binding ribonucleoprotein complex binding protein-containing complex binding RNA binding nucleic acid 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 GDP binding 7S RNA binding pyrophosphatase activity GTPase 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	establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cotranslational protein targeting to membrane cellular process establishment of protein localization to endoplasmic reticulum protein targeting to ER establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting localization within membrane establishment of localization protein targeting to membrane localization SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle cotranslational protein targeting to membrane cellular process establishment of 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 SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition protein-containing complex organization cellular component organization cellular component biogenesis cellular component assembly protein-containing complex assembly cellular component organization or biogenesis multicellular organismal process digestive system development gland development animal organ development exocrine pancreas development multicellular organism development pancreas development exocrine system development system development transport protein transmembrane transport establishment of localization in cell intracellular protein localization intracellular protein transmembrane transport intracellular transport transmembrane transport protein transport macromolecule localization SRP-dependent cotranslational protein targeting to membrane, translocation intracellular protein transport	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle supramolecular complex nuclear ribonucleoprotein granule nuclear lumen cytoplasm cytosol signal recognition particle protein-containing complex signal recognition particle, endoplasmic reticulum targeting ribonucleoprotein complex endoplasmic reticulum endomembrane system
B	signal recognition particle 19kDa protein	RNA binding 7S RNA binding binding nucleic acid binding	localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting cotranslational protein targeting to membrane cellular process localization within membrane establishment of localization protein targeting to membrane SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition protein-containing complex organization cellular component organization cellular component biogenesis localization establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting cotranslational protein targeting to membrane cellular process localization within membrane establishment of localization protein targeting to membrane SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition protein-containing complex organization cellular component organization cellular component biogenesis cellular component assembly SRP-dependent cotranslational protein targeting to membrane establishment of protein localization to organelle protein-containing complex assembly cellular component organization or biogenesis establishment of protein localization to endoplasmic reticulum 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
A	7S RNA of human SRP	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR000897	Signal recognition particle, SRP54 subunit, GTPase domain	Domain
C	IPR004125	Signal recognition particle, SRP54 subunit, M-domain	Domain
C	IPR003593	AAA+ ATPase domain	Domain
C	IPR013822	Signal recognition particle SRP54, helical bundle	Domain
C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C	IPR022941	Signal recognition particle, SRP54 subunit	Family
C	IPR036225	SRP/SRP receptor, N-terminal	Homologous Superfamily
C	IPR042101	Signal recognition particle SRP54, N-terminal domain superfamily	Homologous Superfamily
C	IPR006325	Signal recognition particle, SRP54 subunit, eukaryotic	Family
C	IPR036891	Signal recognition particle, SRP54 subunit, M-domain superfamily	Homologous Superfamily
B	IPR002778	Signal recognition particle, SRP19 subunit	Family
B	IPR036521	Signal recognition particle, subunit SRP19-like superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	Pharos: P61011	Shwachman-Diamond syndrome Alzheimer disease lymphoplasmacytic lymphoma pancreatic ductal adenocarcinoma plasma cell myeloma Shwachman syndrome atopic eczema osteosarcoma Pick disease primary biliary cholangitis dermatomyositis ovarian cancer pituitary cancer progressive supranuclear palsy
B	Pharos: P09132	colorectal adenoma colorectal cancer

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.