2XXA | pdb_00002xxa

The Crystal Structure of the Signal Recognition Particle (SRP) in Complex with its Receptor(SR)

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Simibi-like P-loop NTPases	8056575	3002018	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	SRP/SRP receptor N-terminal domain-like	8056574	3001834	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SRP/SRP receptor N-terminal domain-like	8056574	3001834	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Simibi-like P-loop NTPases	8056575	3002018	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Signal peptide binding domain-like	8056569	3001939	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Simibi-like P-loop NTPases	8056567	3002018	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	SRP/SRP receptor N-terminal domain-like	8056566	3001834	SCOP2B (2022-06-29)
A	SCOP2 Family	SRP54-like	8056565	4003997	SCOP2 (2022-06-29)
A	SCOP2 Family	Signal peptide binding domain-like	8056568	4000906	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Simibi-like P-loop NTPases	8056567	3002018	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Signal peptide binding domain-like	8056569	3001939	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	SRP/SRP receptor N-terminal domain-like	8056566	3001834	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		e2xxaD1	A: alpha bundles	X: Thioredoxin-like	H: Thioredoxin-like	T: Thioredoxin-like	F:	ECOD (develop294)
B		e2xxaB1	A: alpha bundles	X: Thioredoxin-like	H: Thioredoxin-like	T: Thioredoxin-like	F:	ECOD (develop294)
C	AAA	e2xxaC2	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: AAA	ECOD (develop294)
C	GTP_EFTU, MMR_HSR1	e2xxaC6	A: alpha bundles	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: GTP_EFTU, MMR_HSR1	ECOD (develop294)
A	Defensin_1	e2xxaA2	A: alpha bundles	X: Ribonuclease H-like	H: Immunoglobulin-related	T: Defensin-related	F: Defensin_1	ECOD (develop294)
A	TetR_N	e2xxaA6	A: alpha bundles	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: TetR_N	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.20.120.140	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	SRP54, nucleotide-binding domain	CATH (4.3.0)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	1.20.120.140	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	SRP54, nucleotide-binding domain	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	1.20.120.140	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	SRP54, nucleotide-binding domain	CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
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)
A	1.20.120.140	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	SRP54, nucleotide-binding domain	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	1.10.260.30	Mainly Alpha	Orthogonal Bundle	434 Repressor (Amino-terminal Domain)	Signal recognition particle, SRP54 subunit, M-domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, 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
A, C	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
A, C	PF02978	Signal peptide binding domain (SRP_SPB)	Signal peptide binding domain		Domain
A, C	PF02881	SRP54-type protein, helical bundle domain (SRP54_N)	SRP54-type protein, helical bundle domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth F], F [auth G]	4.5S RNA	-	-	-
B, D	SRP RECEPTOR FTSY	ribonucleoprotein complex binding protein-containing complex binding binding signal recognition particle binding identical protein binding protein binding protein homodimerization activity protein dimerization activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding ribonucleoprotein complex binding protein-containing complex binding binding signal recognition particle binding identical protein binding protein binding protein homodimerization activity protein dimerization 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 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	cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress stringent response cellular process response to starvation cellular response to starvation establishment of protein localization cellular localization establishment of protein localization to membrane protein targeting cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress stringent response cellular process response to starvation cellular response to starvation 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 establishment of protein localization to endoplasmic reticulum protein targeting to ER	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane
A, C	SIGNAL RECOGNITION PARTICLE PROTEIN	RNA binding 7S RNA binding 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 RNA binding 7S RNA binding 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 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	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol signal recognition particle protein-containing complex ribonucleoprotein complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR004390	Signal-recognition particle receptor FtsY	Family
B, D	IPR000897	Signal recognition particle, SRP54 subunit, GTPase domain	Domain
B, D	IPR036225	SRP/SRP receptor, N-terminal	Homologous Superfamily
B, D	IPR042101	Signal recognition particle SRP54, N-terminal domain superfamily	Homologous Superfamily
B, D	IPR003593	AAA+ ATPase domain	Domain
B, D	IPR013822	Signal recognition particle SRP54, helical bundle	Domain
B, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, C	IPR000897	Signal recognition particle, SRP54 subunit, GTPase domain	Domain
A, C	IPR022941	Signal recognition particle, SRP54 subunit	Family
A, C	IPR004125	Signal recognition particle, SRP54 subunit, M-domain	Domain
A, C	IPR042101	Signal recognition particle SRP54, N-terminal domain superfamily	Homologous Superfamily
A, C	IPR003593	AAA+ ATPase domain	Domain
A, C	IPR004780	Signal recognition particle protein	Family
A, C	IPR013822	Signal recognition particle SRP54, helical bundle	Domain
A, C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, C	IPR036891	Signal recognition particle, SRP54 subunit, M-domain superfamily	Homologous Superfamily

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.