5DAR | pdb_00005dar

CRYSTAL STRUCTURE OF THE BASE OF THE RIBOSOMAL P STALK FROM METHANOCOCCUS JANNASCHII

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Ribosomal_L10	e5darB1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Ribosomal_L10	ECOD (v294.1)
B	Pyridoxal_deC	e5darB2	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Pyridoxal_deC	ECOD (v294.1)
E	Pyridoxal_deC	e5darE1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Pyridoxal_deC	ECOD (v294.1)
C	Pyridoxal_deC	e5darC1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Pyridoxal_deC	ECOD (v294.1)
F	Pyridoxal_deC	e5darF1	A: a/b three-layered sandwiches	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Pyridoxal_deC	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	3.30.70.1730	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Ribosomal protein L10, N-terminal RNA-binding domain	CATH (4.3.0)
E	3.90.105.20	Alpha Beta	Alpha-Beta Complex	Molybdopterin biosynthesis moea protein, domain 2	Ribosomal protein L10, N-terminal fragment, domain II	CATH (4.3.0)
C	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)
F	3.30.1550.10	Alpha Beta	2-Layer Sandwich	Ribosomal protein L11, N-terminal domain	Ribosomal protein L11/L12, N-terminal domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, E	PF17777	Insertion domain in 60S ribosomal protein L10P (RL10P_insert)	Insertion domain in 60S ribosomal protein L10P	This domain is found in prokaryotic and archaeal ribosomal L10 protein [1].	Domain
B, E	PF00466	Ribosomal protein L10 (Ribosomal_L10)	Ribosomal protein L10	-	Family
C, F	PF03946	Ribosomal protein L11, N-terminal domain (Ribosomal_L11_N)	Ribosomal protein L11, N-terminal domain	The N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain.	Domain
C, F	PF00298	Ribosomal protein L11, RNA binding domain (Ribosomal_L11)	Ribosomal protein L11, RNA binding domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, E	50S ribosomal protein L10	structural molecule activity structural constituent of ribosome RNA binding binding rRNA binding nucleic acid binding large ribosomal subunit rRNA binding	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
C, F	50S ribosomal protein L11	structural molecule activity structural constituent of ribosome RNA binding binding rRNA binding nucleic acid binding large ribosomal subunit rRNA binding	biosynthetic process metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome large ribosomal subunit
A, D	74 nt fragment of 23S rRNA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, E	IPR043141	Large ribosomal subunit protein uL10-like domain superfamily	Homologous Superfamily
B, E	IPR043164	Large ribosomal subunit protein uL10-like, insertion domain superfamily	Homologous Superfamily
B, E	IPR050323	Universal ribosomal protein uL10	Family
B, E	IPR040637	Large ribosomal subunit protein uL10-like, insertion domain	Domain
B, E	IPR001790	Large ribosomal subunit protein uL10, N-terminal	Domain
B, E	IPR022909	Large ribosomal subunit protein uL10, archaea	Family
C, F	IPR020785	Large ribosomal subunit protein uL11, conserved site	Conserved Site
C, F	IPR020783	Large ribosomal subunit protein uL11, C-terminal	Domain
C, F	IPR000911	Ribosomal protein uL11	Family
C, F	IPR036769	Large ribosomal subunit protein uL11, C-terminal domain superfamily	Homologous Superfamily
C, F	IPR020784	Large ribosomal subunit protein uL11, N-terminal	Domain
C, F	IPR036796	Large ribosomal subunit protein uL11, N-terminal 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.