4YOS | pdb_00004yos

p107 pocket domain complexed with LIN52 peptide

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	RPE65	e4yosA1	A: a/b three-layered sandwiches	X: OB-fold	H: Phage tail fiber protein trimerization domain	T: Phage tail fiber protein trimerization domain	F: RPE65	ECOD (v294.1)
A	EF-hand_1, EF-hand_6, EF-hand_7	e4yosA2	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: SAM/DNA-glycosylase	T: SAM domain-like	F: EF-hand_1, EF-hand_6, EF-hand_7	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.472.10	Mainly Alpha	Orthogonal Bundle	Cyclin A	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01857	Retinoblastoma-associated protein B domain (RB_B)	Retinoblastoma-associated protein B domain	The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B domain [1]. The B doma ...	The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B domain [1]. The B domain has a cyclin fold.	Domain
A	PF01858	Retinoblastoma-associated protein A domain (RB_A)	Retinoblastoma-associated protein A domain	This domain has the cyclin fold [1] as predicted [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth E]	Protein lin-52 homolog	-	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	membrane-bounded organelle RNA polymerase II transcription repressor complex protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle DRM complex intracellular organelle cellular anatomical structure organelle transcription repressor complex
A	Retinoblastoma-like protein 1,Retinoblastoma-like protein 1	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription regulatory region nucleic acid binding chromatin binding promoter-specific chromatin binding	developmental process cellular developmental process cell differentiation cellular process regulation of cell cycle phase transition regulation of cellular process negative regulation of biological process negative regulation of cell cycle cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition mitotic cell cycle negative regulation of mitotic cell cycle regulation of mitotic cell cycle developmental process cellular developmental process cell differentiation cellular process regulation of cell cycle phase transition regulation of cellular process negative regulation of biological process negative regulation of cell cycle cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition mitotic cell cycle negative regulation of mitotic cell cycle regulation of mitotic cell cycle negative regulation of cellular process negative regulation of cell cycle phase transition cell cycle regulation of cell cycle cell cycle process negative regulation of G1/S transition of mitotic cell cycle regulation of biological process negative regulation of mitotic cell cycle phase transition regulation of cell cycle process negative regulation of cell cycle G1/S phase transition biological regulation negative regulation of cell cycle process regulation of mitotic cell cycle phase transition mitotic cell cycle process regulation of G1/S transition of mitotic cell cycle G1/S transition of mitotic cell cycle mitotic cell cycle phase transition RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular component organization chromatin organization cellular component organization or biogenesis cellular response to stimulus response to stimulus regulation of cellular senescence cellular senescence negative regulation of cellular senescence cellular response to stress response to stress negative regulation of metabolic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of macromolecule metabolic process negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of RNA metabolic process regulation of catalytic activity phosphorylation regulation of transferase activity regulation of molecular function regulation of lipid kinase activity regulation of kinase activity phosphate-containing compound metabolic process regulation of phosphorylation regulation of phosphorus metabolic process phosphorus metabolic process	protein-containing complex transcription regulator complex intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus intracellular membrane-bounded organelle membrane-enclosed lumen protein-containing complex transcription regulator complex intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus intracellular membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth E]	IPR018737	Protein LIN52	Family
A	IPR048465	Maestro-like, HEAT-repeats domain	Domain
A	IPR016024	Armadillo-type fold	Homologous Superfamily
A	IPR002720	Retinoblastoma-associated protein, A-box	Domain
A	IPR028309	Retinoblastoma protein family	Family
A	IPR002719	Retinoblastoma-associated protein, B-box	Domain
A	IPR011989	Armadillo-like helical	Homologous Superfamily
A	IPR015030	Retinoblastoma-associated protein, C-terminal	Domain
A	IPR036915	Cyclin-like superfamily	Homologous Superfamily
A	IPR055408	MROH2B-like, HEAT-repeats domain	Domain
A	IPR055406	Maestro/Maestro-like, HEAT-repeats domain	Domain
A	IPR013763	Cyclin-like domain	Domain
A	IPR002720	Retinoblastoma-associated protein, A-box	Domain
A	IPR024599	Retinoblastoma-associated protein, N-terminal	Domain
A	IPR028309	Retinoblastoma protein family	Family
A	IPR002719	Retinoblastoma-associated protein, B-box	Domain
A	IPR015030	Retinoblastoma-associated protein, C-terminal	Domain
A	IPR036915	Cyclin-like superfamily	Homologous Superfamily
A	IPR013763	Cyclin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P28749	adrenal cortex carcinoma gastric cancer large cell medulloblastoma osteosarcoma tuberculosis atypical teratoid rhabdoid tumor gastric carcinoma malignant glioma pilocytic astrocytoma eye disease glioblastoma medulloblastoma primitive neuroectodermal tumor

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth E]	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : O-phospho-L-serine MOD:00046

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.