Annotations: 5F3W

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	SMC_N_1	e5f3wD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: SMC_N_1	ECOD (1.6)
B	SMC_N_1	e5f3wB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: SMC_N_1	ECOD (1.6)
C	EUF08178	e5f3wC2	A: alpha bundles	X: Rad50-binding domain of Mre11 (From Topology)	H: Rad50-binding domain of Mre11 (From Topology)	T: Rad50-binding domain of Mre11	F: EUF08178	ECOD (1.6)
C	Metallophos_2_1	e5f3wC3	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: Metallo-dependent phosphatases (From Topology)	T: Metallo-dependent phosphatases	F: Metallophos_2_1	ECOD (1.6)
C	UNK_F_TYPE	e5f3wC1	A: a+b four layers	X: Mre11 nuclease C-terminal domain (From Topology)	H: Mre11 nuclease C-terminal domain (From Topology)	T: Mre11 nuclease C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)
A	EUF08178	e5f3wA1	A: alpha bundles	X: Rad50-binding domain of Mre11 (From Topology)	H: Rad50-binding domain of Mre11 (From Topology)	T: Rad50-binding domain of Mre11	F: EUF08178	ECOD (1.6)
A	Metallophos_2_1	e5f3wA2	A: a+b four layers	X: Carbon-nitrogen hydrolase-like	H: Metallo-dependent phosphatases (From Topology)	T: Metallo-dependent phosphatases	F: Metallophos_2_1	ECOD (1.6)
A	UNK_F_TYPE	e5f3wA3	A: a+b four layers	X: Mre11 nuclease C-terminal domain (From Topology)	H: Mre11 nuclease C-terminal domain (From Topology)	T: Mre11 nuclease C-terminal domain	F: UNK_F_TYPE	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	3.60.21.10	Alpha Beta	4-Layer Sandwich	Purple Acid Phosphatase	chain A, domain 2	CATH (4.3.0)
C	3.30.160.600	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (4.3.0)
C	6.10.10.50	Special	Helix non-globular	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
A	3.60.21.10	Alpha Beta	4-Layer Sandwich	Purple Acid Phosphatase	chain A, domain 2	CATH (4.3.0)
A	3.30.160.600	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (4.3.0)
A	6.10.10.50	Special	Helix non-globular	Helicase, Ruva Protein	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D	PF13476	AAA domain (AAA_23)	AAA domain		Domain
A, C	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
A, C	PF22226	Mre11 C-terminal Rad50-binding domain (Mre11_C)	Mre11 C-terminal Rad50-binding domain	Communication between Mre11 and Rad50 in the MR complex is critical for the sensing, damage signaling, and repair of DNA double-strand breaks. Mre11 protein consists of an N-terminal core domain and a C-terminal domain linked by an extended connectin ...	Communication between Mre11 and Rad50 in the MR complex is critical for the sensing, damage signaling, and repair of DNA double-strand breaks. Mre11 protein consists of an N-terminal core domain and a C-terminal domain linked by an extended connecting loop. The C-terminal domain of Mre11 is composed of three helices and binds to the C-terminal part of the Rad50 coiled-coil [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F	27-MER DNA	-	-	-
E	27-MER DNA	-	-	-
B, D	DNA double-strand break repair Rad50 ATPase,DNA double-strand break repair Rad50 ATPase	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 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 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 catalytic activity ATP-dependent activity cation binding transition metal ion binding zinc ion binding metal ion binding DNA exonuclease activity catalytic activity, acting on DNA nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on a nucleic acid exonuclease activity DNA nuclease activity	cellular response to stimulus double-strand break repair response to stimulus 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	protein-containing complex catalytic complex DNA repair complex
A, C	DNA double-strand break repair protein Mre11	DNA binding binding nucleic acid binding hydrolase activity, acting on ester bonds nuclease activity catalytic activity, acting on a nucleic acid 3'-5' exonuclease activity hydrolase activity exonuclease activity catalytic activity DNA end binding DNA exonuclease activity catalytic activity, acting on DNA DNA nuclease activity DNA binding binding nucleic acid binding hydrolase activity, acting on ester bonds nuclease activity catalytic activity, acting on a nucleic acid 3'-5' exonuclease activity hydrolase activity exonuclease activity catalytic activity DNA end binding DNA exonuclease activity catalytic activity, acting on DNA DNA nuclease activity DNA secondary structure binding Y-form DNA binding cation binding manganese ion binding transition metal ion binding ion binding metal ion binding small molecule binding endonuclease activity identical protein binding protein binding	cellular response to stimulus response to stimulus 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 double-strand break repair	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR022982	DNA double-strand break repair Rad50 ATPase, archaeal type	Family
B, D	IPR013134	RAD50, zinc hook	Domain
B, D	IPR003593	AAA+ ATPase domain	Domain
B, D	IPR038729	Rad50/SbcC-type AAA domain	Domain
B, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, C	IPR004843	Calcineurin-like, phosphoesterase domain	Domain
A, C	IPR029052	Metallo-dependent phosphatase-like	Homologous Superfamily
A, C	IPR055244	DNA double-strand break repair protein Mre11, C-terminal Rad50-binding domain, archaea	Domain
A, C	IPR032885	DNA double-strand break repair protein Mre11, archaea-type	Family
A, C	IPR050535	DNA Repair and Maintenance Complex Component	Family
A, C	IPR041796	DNA double-strand break repair protein Mre11, N-terminal metallophosphatase domain	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.