4FZV | pdb_00004fzv

Crystal structure of the human MTERF4:NSUN4:SAM ternary complex

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	Methyltr_RsmB-F_1	e4fzvA1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: Methyltr_RsmB-F_1	ECOD (1.6)
B	mTERF	e4fzvB1	A: alpha superhelices	X: Mitochondrial mTERF-like	H: Mitochondrial mTERF (From Topology)	T: Mitochondrial mTERF	F: mTERF	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	6.20.240.40	Special	Other non-globular	Alpha-Beta Plaits		CATH (4.3.0)
A	3.40.50.150	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Vaccinia Virus protein VP39	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01189	16S rRNA methyltransferase RsmB/F (Methyltr_RsmB-F)	16S rRNA methyltransferase RsmB/F	This is the catalytic core of this SAM-dependent 16S ribosomal methyltransferase RsmB/F enzyme [1,2]. There is a catalytic cysteine residue at 180 in UniProtKB:Q5SII2, with another highly conserved cysteine at residue 230. It methylates the C(5) posi ...	This is the catalytic core of this SAM-dependent 16S ribosomal methyltransferase RsmB/F enzyme [1,2]. There is a catalytic cysteine residue at 180 in UniProtKB:Q5SII2, with another highly conserved cysteine at residue 230. It methylates the C(5) position of cytosine 2870 (m5C2870) in 25S rRNA [1,2].	Domain
B	PF02536	mTERF (mTERF)	mTERF	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Putative methyltransferase NSUN4	transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity RNA methyltransferase activity rRNA methyltransferase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a rRNA S-adenosylmethionine-dependent methyltransferase activity RNA binding binding rRNA binding nucleic acid binding transferase activity, transferring one-carbon groups transferase activity methyltransferase activity catalytic activity RNA methyltransferase activity rRNA methyltransferase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid catalytic activity, acting on a rRNA S-adenosylmethionine-dependent methyltransferase activity RNA binding binding rRNA binding nucleic acid binding mRNA (cytidine-5-)-methyltransferase activity mRNA methyltransferase activity C-methyltransferase activity rRNA (cytosine) methyltransferase activity rRNA (cytosine-C5-)-methyltransferase activity	catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process mitochondrial RNA metabolic process macromolecule metabolic process mitochondrial RNA catabolic process RNA catabolic process catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process mitochondrial RNA metabolic process macromolecule metabolic process mitochondrial RNA catabolic process RNA catabolic process RNA modification macromolecule modification mitochondrial RNA modification ribonucleoprotein complex biogenesis rRNA methylation rRNA processing rRNA modification cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process cellular component organization or biogenesis RNA processing rRNA metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process macromolecule methylation biosynthetic process methylation RNA methylation	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex mitochondrial large ribosomal subunit membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen ribosomal subunit membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex mitochondrial large ribosomal subunit membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen ribosomal subunit organellar ribosome membraneless organelle ribosome large ribosomal subunit organellar large ribosomal subunit mitochondrial protein-containing complex mitochondrial ribosome intracellular membraneless organelle organelle lumen ribonucleoprotein complex
B	mTERF domain-containing protein 2	DNA binding double-stranded DNA binding binding nucleic acid binding RNA binding rRNA binding	developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development localization establishment of protein localization establishment of protein localization to organelle protein targeting protein targeting to mitochondrion establishment of protein localization to mitochondrion developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development localization establishment of protein localization establishment of protein localization to organelle protein targeting protein targeting to mitochondrion establishment of protein localization to mitochondrion establishment of localization 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 sensory organ development eye development visual system development camera-type eye development sensory system development ribonucleoprotein complex biogenesis rRNA processing cellular component biogenesis ribosome biogenesis cellular component organization or biogenesis RNA processing rRNA metabolic process organelle assembly membraneless organelle assembly cellular component organization organelle organization cellular component assembly mitochondrial ribosome assembly ribosome assembly mitochondrial gene expression mitochondrial transcription mitochondrial RNA metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex mitochondrial large ribosomal subunit membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen ribosomal subunit membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex mitochondrial large ribosomal subunit membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen ribosomal subunit organellar ribosome membraneless organelle ribosome large ribosomal subunit organellar large ribosomal subunit mitochondrial protein-containing complex mitochondrial ribosome intracellular membraneless organelle organelle lumen ribonucleoprotein complex cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001678	SAM-dependent methyltransferase RsmB-F/NOP2-type domain	Domain
A	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Homologous Superfamily
A	IPR023267	RNA (C5-cytosine) methyltransferase	Family
A	IPR049560	SAM-dependent methyltransferase RsmB-F/NOP2-type, catalytic core	Domain
B	IPR038538	MTERF superfamily, mitochondrial/chloroplastic	Homologous Superfamily
B	IPR003690	Transcription termination factor, mitochondrial/chloroplastic	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q96CB9	osteosarcoma
B	Pharos: Q7Z6M4	osteosarcoma

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.