Annotations: 8V11

Structure of a Saccharomyces cerevisiae Ipl1 peptide Bound to dwarf Ndc80 complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	RWD domain-like	8041316	3000774	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RWD domain-like	8041316	3000774	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	RWD domain-like	8041319	3000774	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RWD domain-like	8041319	3000774	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Calponin-homology domain, CH-domain	8053600	3000264	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Calponin-homology domain, CH-domain	8053600	3000264	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Calponin-homology domain, CH-domain	8051981	3000264	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Calponin-homology domain, CH-domain	8051981	3000264	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H	WD40	e8v11H1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D	HATPase_c	e8v11D01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: HATPase_c	ECOD (v294.2)
G	WD40	e8v11G1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
C	HATPase_c	e8v11C01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: HATPase_c	ECOD (v294.2)
F	WD40	e8v11F1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B	HATPase_c	e8v11B01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: HATPase_c	ECOD (v294.2)
E	WD40	e8v11E1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
A	HATPase_c	e8v11A01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: HATPase_c	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, G	PF08286	Spc24 subunit of Ndc80 (Spc24)	Spc24 subunit of Ndc80	-	Family
B, F	PF03800	Nuf2 family (Nuf2)	Nuf2 family	Members of this family are components of the mitotic spindle. It has been shown that Nuf2 from yeast is part of a complex called the Ndc80p complex [1]. This complex is thought to bind to the microtubules of the spindle. An Arabidopsis protein has be ...	Members of this family are components of the mitotic spindle. It has been shown that Nuf2 from yeast is part of a complex called the Ndc80p complex [1]. This complex is thought to bind to the microtubules of the spindle. An Arabidopsis protein has been included in this family that has previously not been identified as a member of this family, Swiss:Q9C953. The match is not strong, but in common with other members of this family contains coiled-coil to the C terminus of this region.	Domain
A, E	PF18077	Domain of unknown function (DUF5595) (DUF5595)	Domain of unknown function (DUF5595)	This domain is found in Nude C 80 (Ndc80) proteins which can be found in species such as Homo sapiens. Ndc80 protein complexes are a core component of the end-on attachment sites for kinetochore microtubules. Ndc80 is also known as Hec1, for highly e ...	This domain is found in Nude C 80 (Ndc80) proteins which can be found in species such as Homo sapiens. Ndc80 protein complexes are a core component of the end-on attachment sites for kinetochore microtubules. Ndc80 is also known as Hec1, for highly expressed in cancer 1 [1].	Domain
A, E	PF03801	HEC/Ndc80p family (Ndc80_HEC)	HEC/Ndc80p family	Members of this family are components of the mitotic spindle. It has been shown that Ndc80/HEC from yeast is part of a complex called the Ndc80p complex [1]. This complex is thought to bind to the microtubules of the spindle.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, H	Kinetochore protein SPC25	-	localization centromere localization chromosome localization organelle localization centromere clustering macromolecule localization protein-containing complex localization cellular process cell division cell cycle chromosome segregation cell cycle process	Ndc80 complex protein-containing complex intracellular anatomical structure intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region outer kinetochore condensed chromosome, centromeric region Ndc80 complex protein-containing complex intracellular anatomical structure intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region outer kinetochore condensed chromosome, centromeric region supramolecular complex condensed chromosome membrane-bounded organelle nucleus intracellular membrane-bounded organelle
C, G	Kinetochore protein SPC24	identical protein binding protein binding binding	attachment of spindle microtubules to kinetochore sister chromatid biorientation chromosome organization sister chromatid segregation cellular component organization metaphase chromosome alignment localization organelle organization chromosome localization organelle localization nuclear chromosome segregation cellular process cellular component organization or biogenesis cell cycle attachment of spindle microtubules to kinetochore sister chromatid biorientation chromosome organization sister chromatid segregation cellular component organization metaphase chromosome alignment localization organelle organization chromosome localization organelle localization nuclear chromosome segregation cellular process cellular component organization or biogenesis cell cycle chromosome segregation cell cycle process centromere localization centromere clustering macromolecule localization protein-containing complex localization cell division	Ndc80 complex protein-containing complex intracellular anatomical structure intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region outer kinetochore condensed chromosome, centromeric region Ndc80 complex protein-containing complex intracellular anatomical structure intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region outer kinetochore condensed chromosome, centromeric region supramolecular complex condensed chromosome membrane-bounded organelle nucleus intracellular membrane-bounded organelle
B, F	Ipl1/Nuf2 chimera protein	protein-containing complex binding binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding protein-containing complex binding binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups 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 protein serine/threonine kinase activity	mitotic metaphase chromosome alignment mitotic cell cycle metaphase chromosome alignment cellular component organization localization chromosome localization organelle localization mitotic sister chromatid segregation cell cycle cellular component organization or biogenesis chromosome segregation cell cycle process mitotic nuclear division attachment of spindle microtubules to kinetochore mitotic metaphase chromosome alignment mitotic cell cycle metaphase chromosome alignment cellular component organization localization chromosome localization organelle localization mitotic sister chromatid segregation cell cycle cellular component organization or biogenesis chromosome segregation cell cycle process mitotic nuclear division attachment of spindle microtubules to kinetochore organelle fission attachment of mitotic spindle microtubules to kinetochore chromosome organization sister chromatid segregation organelle organization nuclear division mitotic cell cycle process nuclear chromosome segregation cellular process cell division microtubule cytoskeleton organization mitotic spindle organization microtubule-based process cytoskeleton organization microtubule cytoskeleton organization involved in mitosis spindle organization meiotic chromosome segregation sexual reproduction reproductive process meiotic cell cycle meiotic cell cycle process meiotic nuclear division kinetochore organization cellular component disassembly spindle disassembly organelle disassembly mitotic spindle disassembly cellular response to stimulus positive regulation of cell communication regulation of cellular process regulation of cell cycle phase transition positive regulation of signal transduction response to stimulus positive regulation of cell cycle checkpoint negative regulation of biological process spindle checkpoint signaling negative regulation of cell cycle regulation of signal transduction regulation of mitotic nuclear division intracellular signal transduction negative regulation of mitotic cell cycle cell communication regulation of cell cycle checkpoint negative regulation of mitotic sister chromatid segregation negative regulation of chromosome organization negative regulation of cell cycle phase transition mitotic spindle checkpoint signaling signal transduction mitotic sister chromatid separation negative regulation of sister chromatid segregation mitotic spindle assembly checkpoint signaling regulation of biological process negative regulation of cellular component organization regulation of cell cycle process regulation of spindle checkpoint positive regulation of intracellular signal transduction regulation of chromosome organization regulation of organelle organization regulation of mitotic cell cycle phase transition regulation of mitotic sister chromatid segregation regulation of response to stimulus positive regulation of mitotic cell cycle spindle assembly checkpoint regulation of chromosome separation negative regulation of mitotic nuclear division regulation of chromosome segregation regulation of cellular component organization regulation of mitotic sister chromatid separation regulation of metaphase/anaphase transition of cell cycle regulation of mitotic spindle checkpoint signaling regulation of mitotic cell cycle spindle assembly checkpoint spindle assembly checkpoint signaling positive regulation of biological process cell cycle phase transition regulation of mitotic metaphase/anaphase transition positive regulation of response to stimulus regulation of mitotic cell cycle regulation of intracellular signal transduction negative regulation of cellular process positive regulation of cell cycle process negative regulation of mitotic metaphase/anaphase transition regulation of cell cycle negative regulation of chromosome separation positive regulation of cellular process positive regulation of spindle checkpoint regulation of signaling negative regulation of mitotic cell cycle phase transition biological regulation negative regulation of cell cycle process positive regulation of cell cycle cell cycle checkpoint signaling mitotic cell cycle checkpoint signaling negative regulation of chromosome segregation negative regulation of nuclear division negative regulation of organelle organization chromosome separation regulation of sister chromatid segregation negative regulation of mitotic sister chromatid separation regulation of nuclear division negative regulation of metaphase/anaphase transition of cell cycle metaphase/anaphase transition of mitotic cell cycle regulation of cell communication metaphase/anaphase transition of cell cycle mitotic cell cycle phase transition positive regulation of signaling regulation of cytoskeleton organization regulation of mitotic spindle organization membraneless organelle assembly cellular component biogenesis cellular component assembly regulation of mitotic spindle assembly organelle assembly regulation of microtubule-based process regulation of spindle organization regulation of cellular component biogenesis spindle assembly regulation of spindle assembly mitotic spindle assembly regulation of organelle assembly regulation of microtubule cytoskeleton organization sister chromatid biorientation protein phosphorylation phosphorylation primary metabolic process macromolecule modification peptidyl-amino acid modification phosphate-containing compound metabolic process metabolic process peptidyl-threonine modification protein metabolic process macromolecule metabolic process protein modification process peptidyl-threonine phosphorylation regulation of cytokinesis cytokinesis regulation of cell division response to endogenous stimulus response to mitotic cell cycle checkpoint signaling negative regulation of protein import into nucleus during spindle assembly checkpoint response to biotic stimulus cellular response to biotic stimulus cellular response to endogenous stimulus response to mitotic cell cycle spindle assembly checkpoint signaling response to spindle assembly checkpoint signaling response to mitotic spindle checkpoint signaling response to cell cycle checkpoint signaling response to spindle checkpoint signaling attachment of meiotic spindle microtubules to kinetochore meiotic metaphase chromosome alignment meiosis I meiosis I cell cycle process homologous chromosome segregation peptidyl-serine modification peptidyl-serine phosphorylation mitotic DNA integrity checkpoint signaling DNA integrity checkpoint signaling regulation of reproductive process regulation of metaphase/anaphase transition of meiotic cell cycle regulation of meiotic cell cycle negative regulation of meiotic chromosome separation negative regulation of meiotic cell cycle phase transition negative regulation of meiotic cell cycle meiotic spindle checkpoint signaling regulation of meiotic chromosome separation negative regulation of metaphase/anaphase transition of meiotic cell cycle metaphase/anaphase transition of meiotic cell cycle meiotic chromosome separation regulation of meiotic cell cycle phase transition meiotic cell cycle checkpoint signaling meiotic cell cycle phase transition negative regulation of reproductive process meiosis II cell cycle process chromosome organization involved in meiotic cell cycle meiotic sister chromatid segregation meiosis II	intracellular anatomical structure intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome microtubule organizing center intracellular anatomical structure intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome microtubule organizing center cytoskeleton spindle pole body microtubule cytoskeleton Ndc80 complex protein-containing complex outer kinetochore polymeric cytoskeletal fiber spindle spindle microtubule supramolecular fiber microtubule supramolecular polymer membrane-bounded organelle nucleus intracellular membrane-bounded organelle spindle pole spindle midzone cytoplasm chromosome passenger complex microtubule associated complex kinetochore microtubule
A, E	Kinetochore protein NDC80	identical protein binding protein binding binding	localization protein localization to kinetochore protein localization to chromosome protein localization to chromosome, centromeric region protein localization to condensed chromosome protein localization to organelle macromolecule localization intracellular protein localization mitotic metaphase chromosome alignment mitotic cell cycle metaphase chromosome alignment cellular component organization chromosome localization organelle localization localization protein localization to kinetochore protein localization to chromosome protein localization to chromosome, centromeric region protein localization to condensed chromosome protein localization to organelle macromolecule localization intracellular protein localization mitotic metaphase chromosome alignment mitotic cell cycle metaphase chromosome alignment cellular component organization chromosome localization organelle localization mitotic sister chromatid segregation cell cycle cellular component organization or biogenesis chromosome segregation cell cycle process mitotic nuclear division attachment of spindle microtubules to kinetochore organelle fission attachment of mitotic spindle microtubules to kinetochore chromosome organization sister chromatid segregation organelle organization nuclear division mitotic cell cycle process nuclear chromosome segregation cellular process cell division sister chromatid biorientation mitotic sister chromatid biorientation	intracellular anatomical structure intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome Ndc80 complex intracellular anatomical structure intracellular membraneless organelle chromosome chromosomal region kinetochore intracellular organelle cellular anatomical structure organelle membraneless organelle chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome Ndc80 complex protein-containing complex outer kinetochore membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D, H	IPR038066	Spc24, Fungi, globular domain superfamily	Homologous Superfamily
C, G	IPR013252	Kinetochore-Ndc80 subunit Spc24	Family
C, G	IPR038066	Spc24, Fungi, globular domain superfamily	Homologous Superfamily
B, F	IPR038275	Nuf2, N-terminal domain superfamily	Homologous Superfamily
B, F	IPR005549	Kinetochore protein Nuf2, N-terminal	Domain
B, F	IPR017441	Protein kinase, ATP binding site	Binding Site
B, F	IPR030616	Aurora kinase-like	Family
B, F	IPR000719	Protein kinase domain	Domain
B, F	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
B, F	IPR008271	Serine/threonine-protein kinase, active site	Active Site
A, E	IPR040967	Domain of unknown function DUF5595	Domain
A, E	IPR038273	Ndc80 domain superfamily	Homologous Superfamily
A, E	IPR005550	Kinetochore protein Ndc80	Family
A, E	IPR055260	Kinetochore protein Ndc80, CH domain	Domain

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.