Annotations: 9BI5

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A], D [auth B]	PF00149	Calcineurin-like phosphoesterase (Metallophos)	Calcineurin-like phosphoesterase	This family includes a diverse range of phosphoesterases [1], including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases as well as nucleases such as bacterial SbcD Swiss:P13457 or ...	This family includes a diverse range of phosphoesterases [1], including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases as well as nucleases such as bacterial SbcD Swiss:P13457 or yeast MRE11 Swiss:P32829. The most conserved regions in this superfamily centre around the metal chelating residues.	Domain
B [auth A], D [auth B]	PF04152	Mre11 DNA-binding presumed domain (Mre11_DNA_bind)	Mre11 DNA-binding presumed domain	The Mre11 complex is a multi-subunit nuclease that is composed of Mre11, Rad50 and Nbs1/Xrs2, and is involved in checkpoint signalling and DNA replication [1]. Mre11 has an intrinsic DNA-binding activity that is stimulated by Rad50 on its own or in ...	The Mre11 complex is a multi-subunit nuclease that is composed of Mre11, Rad50 and Nbs1/Xrs2, and is involved in checkpoint signalling and DNA replication [1]. Mre11 has an intrinsic DNA-binding activity that is stimulated by Rad50 on its own or in combination with Nbs1 [2].	Domain
A [auth D], C	PF13558	SbcC/RAD50-like, Walker B motif (SbcC_Walker_B)	SbcC/RAD50-like, Walker B motif	This entry represents the Walker B domain of RAD50 from eukaryotes and the prokaryotic homologue SbcCD complex subunit C. RAD50-ATPase forms a complex with Mre11-nuclease that detects and processes diverse and obstructed DNA ends. This domain is sepa ...	This entry represents the Walker B domain of RAD50 from eukaryotes and the prokaryotic homologue SbcCD complex subunit C. RAD50-ATPase forms a complex with Mre11-nuclease that detects and processes diverse and obstructed DNA ends. This domain is separated of the Walker A domain by a long coiled-coil domain and forms the nucleotide-binding domain (NBD) when the coiled coils fold back on themselves and bring together Walker A and B domains [1,2,3,4]. Two RAD50-NBDs forms heterotetramers with a Mre11 nuclease dimer that assemble as catalytic head module that binds and cleaves DNA in an ATP-dependent reaction. Through secondary structural analysis, it has been suggested that there is a wide structural conservation in the Rad50/SMC protein family as seen in structural similarities between RAD50's hook and ABC-ATPase MukB's elbow region [4].	Domain
A [auth D], C	PF13476	AAA domain (AAA_23)	AAA domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth A], D [auth B]	Double-strand break repair protein MRE11	DNA endonuclease activity endonuclease activity catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid catalytic activity DNA nuclease activity cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding DNA endonuclease activity endonuclease activity catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid catalytic activity DNA nuclease activity cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding sequence-specific DNA binding DNA binding nucleic acid binding telomeric DNA binding G-quadruplex DNA binding DNA exonuclease activity 3'-5' exonuclease activity hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters hydrolase activity, acting on ester bonds 3'-5'-DNA exonuclease activity exonuclease activity double-stranded telomeric DNA binding double-stranded DNA binding single-stranded DNA endodeoxyribonuclease activity molecular adaptor activity sequence-specific single stranded DNA binding single-stranded telomeric DNA binding single-stranded DNA binding	cellular response to stimulus double-strand break repair response to stimulus DNA double-strand break processing primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process cellular response to stimulus double-strand break repair response to stimulus DNA double-strand break processing primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair cellular component organization chromatin organization chromatin remodeling cellular component organization or biogenesis R-loop processing homologous recombination sexual reproduction reproductive process meiotic cell cycle process meiosis I meiotic nuclear division cell cycle reciprocal homologous recombination cell cycle process DNA recombination meiotic cell cycle organelle fission reciprocal meiotic recombination nuclear division organelle organization meiosis I cell cycle process nucleoside phosphate metabolic process nucleoside monophosphate phosphorylation nucleotide biosynthetic process nucleobase-containing compound biosynthetic process nucleotide metabolic process biosynthetic process organophosphate metabolic process nucleobase-containing small molecule metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process nucleoside phosphate biosynthetic process small molecule metabolic process nucleoside monophosphate metabolic process phosphorus metabolic process double-strand break repair via synthesis-dependent strand annealing recombinational repair double-strand break repair via homologous recombination DNA double-strand break processing involved in repair via synthesis-dependent strand annealing double-strand break repair via break-induced replication telomere organization chromosome organization telomere maintenance meiotic DNA double-strand break formation maintenance of DNA repeat elements maintenance of DNA trinucleotide repeats regulation of cellular process regulation of cell cycle phase transition DNA damage checkpoint signaling signaling G2/M transition of mitotic cell cycle mitotic G2 DNA damage checkpoint signaling negative regulation of biological process negative regulation of cell cycle cell cycle phase transition intracellular signal transduction mitotic cell cycle negative regulation of mitotic cell cycle mitotic G2/M transition checkpoint cell communication regulation of mitotic cell cycle mitotic DNA integrity checkpoint signaling mitotic DNA damage checkpoint signaling negative regulation of cellular process negative regulation of cell cycle phase transition signal transduction regulation of cell cycle cell cycle G2/M phase transition regulation of biological process negative regulation of mitotic cell cycle phase transition regulation of G2/M transition of mitotic cell cycle regulation of cell cycle process biological regulation DNA integrity checkpoint signaling regulation of cell cycle G2/M phase transition negative regulation of cell cycle process cell cycle checkpoint signaling regulation of mitotic cell cycle phase transition mitotic cell cycle checkpoint signaling mitotic cell cycle process negative regulation of cell cycle G2/M phase transition signal transduction in response to DNA damage negative regulation of G2/M transition of mitotic cell cycle mitotic cell cycle phase transition base-excision repair mitochondrial double-strand break repair mitochondrial double-strand break repair via homologous recombination developmental process sexual sporulation resulting in formation of a cellular spore cellular developmental process reproductive process in single-celled organism cell development developmental process involved in reproduction sporulation resulting in formation of a cellular spore anatomical structure morphogenesis ascospore formation sexual sporulation cell differentiation anatomical structure formation involved in morphogenesis anatomical structure development sporulation RNA metabolic process regulation of primary 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 regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process mitotic intra-S DNA damage checkpoint signaling meiotic DNA double-strand break formation involved in reciprocal meiotic recombination double-strand break repair via nonhomologous end joining	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-containing complex Mre11 complex nuclear protein-containing complex site of double-strand break membraneless organelle site of DNA damage intracellular membraneless organelle chromosome chromosome, telomeric region chromosomal region
A [auth D], C	DNA repair protein RAD50	nucleobase-containing compound kinase activity nucleoside monophosphate kinase activity kinase activity AMP kinase activity transferase activity catalytic activity phosphotransferase activity, phosphate group as acceptor transferase activity, transferring phosphorus-containing groups sequence-specific DNA binding DNA binding binding nucleic acid binding telomeric DNA binding G-quadruplex DNA binding nucleobase-containing compound kinase activity nucleoside monophosphate kinase activity kinase activity AMP kinase activity transferase activity catalytic activity phosphotransferase activity, phosphate group as acceptor transferase activity, transferring phosphorus-containing groups sequence-specific DNA binding DNA binding binding nucleic acid binding telomeric DNA binding G-quadruplex DNA binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding double-stranded telomeric DNA binding double-stranded DNA binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides ATP-dependent activity sequence-specific single stranded DNA binding single-stranded telomeric DNA binding single-stranded DNA binding cation binding metal ion binding	sexual reproduction reproductive process meiotic cell cycle chromosome organization meiotic cell cycle process cellular component organization chromosome organization involved in meiotic cell cycle organelle organization cellular process cellular component organization or biogenesis cell cycle cell cycle process telomere maintenance via telomerase telomere organization sexual reproduction reproductive process meiotic cell cycle chromosome organization meiotic cell cycle process cellular component organization chromosome organization involved in meiotic cell cycle organelle organization cellular process cellular component organization or biogenesis cell cycle cell cycle process telomere maintenance via telomerase telomere organization primary metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA-templated DNA biosynthetic process nucleobase-containing compound metabolic process telomere maintenance via telomere lengthening telomere maintenance nucleic acid biosynthetic process biosynthetic process metabolic process macromolecule metabolic process DNA biosynthetic process chromatin organization chromatin remodeling R-loop processing DNA recombination mitotic recombination telomere maintenance via recombination meiotic chromosome segregation organelle fission nuclear division meiosis I meiosis I cell cycle process homologous chromosome pairing at meiosis nuclear chromosome segregation meiotic nuclear division homologous chromosome segregation chromosome segregation meiotic DNA double-strand break formation maintenance of DNA repeat elements maintenance of DNA trinucleotide repeats cellular response to stimulus response to stimulus base-excision repair cellular response to stress DNA damage response response to stress DNA repair double-strand break repair mitochondrial double-strand break repair mitochondrial double-strand break repair via homologous recombination recombinational repair double-strand break repair via nonhomologous end joining	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle condensed nuclear chromosome nucleus membrane-enclosed lumen intracellular membraneless organelle nuclear chromosome chromosome membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle condensed nuclear chromosome nucleus membrane-enclosed lumen intracellular membraneless organelle nuclear chromosome chromosome intracellular organelle lumen organelle lumen membraneless organelle condensed chromosome nuclear lumen nucleoplasm protein-containing complex Mre11 complex nuclear protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], D [auth B]	IPR038487	Mre11, capping domain	Homologous Superfamily
B [auth A], D [auth B]	IPR003701	DNA double-strand break repair protein Mre11	Family
B [auth A], D [auth B]	IPR004843	Calcineurin-like, phosphoesterase domain	Domain
B [auth A], D [auth B]	IPR029052	Metallo-dependent phosphatase-like	Homologous Superfamily
B [auth A], D [auth B]	IPR007281	Mre11, DNA-binding	Domain
B [auth A], D [auth B]	IPR041796	DNA double-strand break repair protein Mre11, N-terminal metallophosphatase domain	Domain
A [auth D], C	IPR038729	Rad50/SbcC-type AAA domain	Domain
A [auth D], C	IPR004584	DNA repair protein Rad50, eukaryotes	Family
A [auth D], C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A [auth D], C	IPR013134	RAD50, zinc hook	Domain

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.