4BXF

60S ribosomal protein L27A histidine hydroxylase (MINA53 Y209C) in complex with MN(II), 2-oxoglutarate (2OG) and 60S ribosomal protein L27A (RPL27A G37C) peptide fragment

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Cupin_4	e4bxfA2	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: Cupin_4	ECOD (1.6)
A	KOG3706_1	e4bxfA1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: KOG3706_1	ECOD (1.6)
B	Cupin_4	e4bxfB2	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: Cupin_4	ECOD (1.6)
B	KOG3706_1	e4bxfB1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: KOG3706_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.650	Mainly Beta	Sandwich	Jelly Rolls	Cupin	CATH (4.3.0)
A	1.10.10.1500	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	JmjC domain-containing ribosomal oxygenase (ROX), dimer domain	CATH (4.3.0)
A	3.90.930.40	Alpha Beta	Alpha-Beta Complex	Outer Surface Protein A	domain 3	CATH (4.3.0)
B	2.60.120.650	Mainly Beta	Sandwich	Jelly Rolls	Cupin	CATH (4.3.0)
B	1.10.10.1500	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	JmjC domain-containing ribosomal oxygenase (ROX), dimer domain	CATH (4.3.0)
B	3.90.930.40	Alpha Beta	Alpha-Beta Complex	Outer Surface Protein A	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF20514	ROXA-like winged helix (ROXA-like_wH)	ROXA-like winged helix	This entry represents the winged helix domain of ribosomal oxygenases, including ROXA from E.coli, which is reminiscent of WH-domains involved in protein-protein and protein-nucleic acid interactions. However, this domain has an overall negative char ...	This entry represents the winged helix domain of ribosomal oxygenases, including ROXA from E.coli, which is reminiscent of WH-domains involved in protein-protein and protein-nucleic acid interactions. However, this domain has an overall negative charge suggesting they do not directly bind nucleic acids [1].	Domain
A, B	PF08007	JmjC domain (JmjC_2)	JmjC domain	This entry includes proteins with a JmjC domain that belong to the cupin superfamily, including Bifunctional lysine-specific demethylase and histidyl-hydroxylase NO66 [1], Ribosomal oxygenase 1/2 [2,3], and 50S ribosomal protein L16 3-hydroxylase fro ...	This entry includes proteins with a JmjC domain that belong to the cupin superfamily, including Bifunctional lysine-specific demethylase and histidyl-hydroxylase NO66 [1], Ribosomal oxygenase 1/2 [2,3], and 50S ribosomal protein L16 3-hydroxylase from Escherichia coli [4,5]. Proteins are bifunctional, acting as histone lysine demethylases and ribosomal histidine hydroxylases.	Domain
C, D	PF00828	Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A)	Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	BIFUNCTIONAL LYSINE-SPECIFIC DEMETHYLASE AND HISTIDYL-HYDROXYLASE MINA	transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity histone H3K36 demethylase activity catalytic activity, acting on a protein protein demethylase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen histone demethylase activity demethylase activity dioxygenase activity oxidoreductase activity histone H3 demethylase activity transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity histone H3K36 demethylase activity catalytic activity, acting on a protein protein demethylase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen histone demethylase activity demethylase activity dioxygenase activity oxidoreductase activity histone H3 demethylase activity histone modifying activity catalytic activity 2-oxoglutarate-dependent dioxygenase activity histone H3K4 demethylase activity cation binding ion binding binding metal ion binding small molecule binding identical protein binding protein binding peptidyl-histidine dioxygenase activity	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle cytoplasm cytosol protein-containing complex transcription regulator complex nucleoplasm
C, D	60S RIBOSOMAL PROTEIN L27A	RNA binding binding organic cyclic compound binding nucleic acid binding structural molecule activity structural constituent of ribosome	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process cytoplasmic translation nitrogen compound metabolic process metabolic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process translation gene expression macromolecule biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process cytoplasmic translation nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process	membrane cellular anatomical entity intracellular organelle intracellular anatomical structure cytosolic ribosome organelle intracellular non-membrane-bounded organelle ribosome cytoplasm cytosol non-membrane-bounded organelle synapse cell junction protein-containing complex membrane cellular anatomical entity intracellular organelle intracellular anatomical structure cytosolic ribosome organelle intracellular non-membrane-bounded organelle ribosome cytoplasm cytosol non-membrane-bounded organelle synapse cell junction protein-containing complex ribosomal subunit cytosolic large ribosomal subunit ribonucleoprotein complex large ribosomal subunit membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen endoplasmic reticulum endomembrane system

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR003347	JmjC domain	Domain
A, B	IPR039994	Histone lysine demethylase/ribosomal histidine hydroxylase NO66-like	Family
A, B	IPR046799	ROXA-like, winged helix	Domain
C, D	IPR027386	Ribosomal uL15, N-terminal	Homologous Superfamily
C, D	IPR001196	Large ribosomal subunit protein uL15, conserved site	Conserved Site
C, D	IPR021131	Large ribosomal subunit protein uL15/eL18	Domain
C, D	IPR030878	Large ribosomal subunit protein uL15	Family
C, D	IPR036227	Large ribosomal subunit protein uL15/eL18 superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q8IUF8	acute myeloid leukemia large cell medulloblastoma Lung Neoplasms medulloblastoma pilocytic astrocytoma breast cancer lung benign neoplasm malignant ependymoma osteosarcoma psoriasis Crohn disease lung cancer ovarian cancer
C, D	Pharos: P46776	cerebellar ataxia pancytopenia Hyperpigmentation lung adenocarcinoma oligodendroglioma malignant ependymoma astrocytic tumor myocardial infarction pilocytic astrocytoma

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.