7Q2Y

Cryo-EM structure of clamped S.cerevisiae condensin-DNA complex (form II)

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	F_UNCLASSIFIED	e7q2yA1	A: alpha bundles	X: Helical domain in structural maintenance of chromosomes protein 3 (From Topology)	H: Helical domain in structural maintenance of chromosomes protein 3 (From Topology)	T: Helical domain in structural maintenance of chromosomes protein 3	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF02463	e7q2yA2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF02463	ECOD (1.6)
B	PF02463	e7q2yB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF02463	ECOD (1.6)
D	PF12717,PF12922	e7q2yD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF12717,PF12922	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF02463	RecF/RecN/SMC N terminal domain (SMC_N)	RecF/RecN/SMC N terminal domain	This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. T ...	This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics [1]. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.	Domain
C	PF05786	Condensin complex subunit 2 (Cnd2)	Condensin complex subunit 2	-	Family
D	PF12717	non-SMC mitotic condensation complex subunit 1 (Cnd1)	non-SMC mitotic condensation complex subunit 1	-	Repeat
D	PF12922	non-SMC mitotic condensation complex subunit 1, N-term (Cnd1_N)	non-SMC mitotic condensation complex subunit 1, N-term	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Structural maintenance of chromosomes protein 2	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding double-stranded DNA binding nucleic acid binding DNA secondary structure binding minor groove of adenine-thymine-rich DNA binding protein-containing complex binding chromatin 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	cellular process cell division cellular component organization organelle organization chromosome condensation chromosome organization cellular component organization or biogenesis mitotic nuclear division mitotic chromosome condensation organelle fission sister chromatid segregation mitotic cell cycle nuclear division mitotic cell cycle process cellular process cell division cellular component organization organelle organization chromosome condensation chromosome organization cellular component organization or biogenesis mitotic nuclear division mitotic chromosome condensation organelle fission sister chromatid segregation mitotic cell cycle nuclear division mitotic cell cycle process mitotic sister chromatid segregation nuclear chromosome segregation cell cycle chromosome segregation cell cycle process rDNA chromatin condensation protein-containing complex organization nucleolar chromatin organization protein-DNA complex organization nucleus organization nucleolus organization chromatin organization tRNA gene clustering regulation of cellular process sexual reproduction regulation of reproductive process reproductive process negative regulation of biological process negative regulation of cell cycle meiotic cell cycle process regulation of primary metabolic process nucleobase-containing compound metabolic process regulation of meiotic DNA double-strand break formation organic substance metabolic process negative regulation of meiotic DNA double-strand break formation negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of cell cycle negative regulation of macromolecule metabolic process regulation of biological process regulation of cell cycle process meiotic cell cycle negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process DNA metabolic process negative regulation of cell cycle process nucleic acid metabolic process organic cyclic compound metabolic process meiotic DNA double-strand break formation meiosis I cell cycle process negative regulation of reproductive process metabolic process negative regulation of DNA metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle intracellular non-membrane-bounded organelle chromosome condensed chromosome non-membrane-bounded organelle protein-containing complex condensin complex membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle intracellular non-membrane-bounded organelle chromosome condensed chromosome non-membrane-bounded organelle protein-containing complex condensin complex protein-DNA complex chromatin nucleus
B	Structural maintenance of chromosomes protein 4	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein-containing complex binding chromatin 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	cellular process cell division cellular component organization organelle organization chromosome condensation chromosome organization cellular component organization or biogenesis mitotic nuclear division mitotic chromosome condensation organelle fission sister chromatid segregation mitotic cell cycle nuclear division mitotic cell cycle process cellular process cell division cellular component organization organelle organization chromosome condensation chromosome organization cellular component organization or biogenesis mitotic nuclear division mitotic chromosome condensation organelle fission sister chromatid segregation mitotic cell cycle nuclear division mitotic cell cycle process mitotic sister chromatid segregation nuclear chromosome segregation cell cycle chromosome segregation cell cycle process rDNA chromatin condensation protein-containing complex organization nucleolar chromatin organization protein-DNA complex organization nucleus organization nucleolus organization chromatin organization tRNA gene clustering	intracellular anatomical structure cytoplasm cellular anatomical entity intracellular organelle protein-containing complex organelle intracellular non-membrane-bounded organelle chromosome condensin complex non-membrane-bounded organelle membrane-bounded organelle nucleus intracellular membrane-bounded organelle
C	Condensin complex subunit 2	protein-containing complex binding chromatin binding binding	mitotic nuclear division mitotic chromosome condensation organelle fission chromosome organization sister chromatid segregation mitotic cell cycle cellular component organization organelle organization nuclear division mitotic cell cycle process chromosome condensation mitotic sister chromatid segregation nuclear chromosome segregation cellular process mitotic nuclear division mitotic chromosome condensation organelle fission chromosome organization sister chromatid segregation mitotic cell cycle cellular component organization organelle organization nuclear division mitotic cell cycle process chromosome condensation mitotic sister chromatid segregation nuclear chromosome segregation cellular process cell cycle cellular component organization or biogenesis chromosome segregation cell cycle process tRNA gene clustering cell division	intracellular anatomical structure cytoplasm cellular anatomical entity intracellular organelle protein-containing complex organelle intracellular non-membrane-bounded organelle chromosome condensin complex non-membrane-bounded organelle membrane-bounded organelle nucleus intracellular membrane-bounded organelle
D	Condensin complex subunit 1	protein binding binding histone binding	chromosome organization primary metabolic process DNA metabolic process maintenance of DNA repeat elements nucleic acid metabolic process cellular component organization nucleobase-containing compound metabolic process maintenance of rDNA organic cyclic compound metabolic process organelle organization organic substance metabolic process cellular process metabolic process cellular component organization or biogenesis chromosome organization primary metabolic process DNA metabolic process maintenance of DNA repeat elements nucleic acid metabolic process cellular component organization nucleobase-containing compound metabolic process maintenance of rDNA organic cyclic compound metabolic process organelle organization organic substance metabolic process cellular process metabolic process cellular component organization or biogenesis macromolecule metabolic process meiotic chromosome segregation meiotic chromosome separation sexual reproduction reproductive process meiotic cell cycle organelle fission meiotic cell cycle process nuclear division chromosome separation nuclear chromosome segregation meiotic nuclear division cell cycle chromosome segregation cell cycle process cell division synaptonemal complex assembly cellular component biogenesis cellular component assembly meiosis I synaptonemal complex organization chromosome organization involved in meiotic cell cycle meiosis I cell cycle process homologous chromosome pairing at meiosis homologous chromosome segregation chromosome condensation mitotic nuclear division mitotic chromosome condensation sister chromatid segregation mitotic cell cycle mitotic cell cycle process mitotic sister chromatid segregation regulation of cellular process cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process protein-DNA complex organization chromatin organization organic substance biosynthetic process negative regulation of cellular process chromatin remodeling negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process heterochromatin formation protein-containing complex organization epigenetic regulation of gene expression cellular metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process silent mating-type cassette heterochromatin formation negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process regulation of metabolic process cellular catabolic process catabolic process macroautophagy autophagy nucleophagy process utilizing autophagic mechanism rDNA chromatin condensation nucleolar chromatin organization nucleus organization nucleolus organization tRNA gene clustering meiotic chromosome condensation regulation of reproductive process negative regulation of cell cycle regulation of primary metabolic process regulation of meiotic DNA double-strand break formation negative regulation of meiotic DNA double-strand break formation negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of cell cycle regulation of cell cycle process negative regulation of cell cycle process meiotic DNA double-strand break formation negative regulation of reproductive process negative regulation of DNA metabolic process regulation of DNA metabolic process	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 chromosome chromosomal region chromosome, centromeric region condensed chromosome, centromeric region condensed chromosome protein-containing complex condensin complex
E [auth F]	DNA (28-MER)	-	-	-
F [auth G]	DNA (28-MER)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR010935	SMCs flexible hinge	Domain
A	IPR036277	SMCs flexible hinge superfamily	Homologous Superfamily
A	IPR027120	Smc2, ATP-binding cassette domain	Domain
A	IPR003395	RecF/RecN/SMC, N-terminal	Domain
A	IPR024704	Structural maintenance of chromosomes protein	Family
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B	IPR010935	SMCs flexible hinge	Domain
B	IPR036277	SMCs flexible hinge superfamily	Homologous Superfamily
B	IPR003395	RecF/RecN/SMC, N-terminal	Domain
B	IPR024704	Structural maintenance of chromosomes protein	Family
B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C	IPR022816	Condensin complex subunit 2/barren	Family
D	IPR007673	Condensin subunit 1	Family
D	IPR016024	Armadillo-type fold	Homologous Superfamily
D	IPR026971	Condensin subunit 1/Condensin-2 complex subunit D3	Family
D	IPR032682	Condensin complex subunit 1, C-terminal	Domain
D	IPR011989	Armadillo-like helical	Homologous Superfamily
D	IPR024324	Condensin complex subunit 1, N-terminal	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 R01GM133198.