1Y39 | pdb_00001y39

Co-evolution of protein and RNA structures within a highly conserved ribosomal domain

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth B]	d1y39b1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)
C [auth A]	d1y39a1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	Ribosomal protein L11, C-terminal domain	(Geobacillus stearothermophilus ) [TaxId: 1422 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth B]	SCOP2B Superfamily	Ribosomal protein L11, C-terminal domain	8039481	3001186	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Ribosomal protein L11, C-terminal domain	8039481	3001186	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)
D [auth B]	Ribonuclease_3	e1y39B2	A: a/b three-layered sandwiches	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: Ribonuclease_3	ECOD (v294.1)
C [auth A]	Ribonuclease_3	e1y39A2	A: a/b three-layered sandwiches	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: Ribonuclease_3	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth B]	1.10.10.250	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Ribosomal protein L11/L12, C-terminal domain	CATH (4.3.0)
C [auth A]	1.10.10.250	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Ribosomal protein L11/L12, C-terminal domain	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C], B [auth D]	58 Nucleotide Ribosomal 23S RNA Domain	-	-	-
C [auth A], D [auth B]	50S ribosomal protein L11	RNA binding binding rRNA binding nucleic acid binding large ribosomal subunit rRNA binding structural molecule activity structural constituent of ribosome	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 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], D [auth B]	IPR020785	Large ribosomal subunit protein uL11, conserved site	Conserved Site
C [auth A], D [auth B]	IPR020783	Large ribosomal subunit protein uL11, C-terminal	Domain
C [auth A], D [auth B]	IPR000911	Ribosomal protein uL11	Family
C [auth A], D [auth B]	IPR020784	Large ribosomal subunit protein uL11, N-terminal	Domain
C [auth A], D [auth B]	IPR036769	Large ribosomal subunit protein uL11, C-terminal domain superfamily	Homologous Superfamily
C [auth A], D [auth B]	IPR036796	Large ribosomal subunit protein uL11, N-terminal domain superfamily	Homologous Superfamily
C [auth A], D [auth B]	IPR006519	Large ribosomal subunit protein uL11, bacteria	Family

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.