3T79 | pdb_00003t79

Ndc10: a platform for inner kinetochore assembly in budding yeast

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
F [auth D]	SCOP2B Superfamily	lambda integrase clamp domain-like	8053776	3000550	SCOP2B (2022-06-29)
F [auth D]	SCOP2B Superfamily	DNA breaking-rejoining enzymes	8053767	3001127	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	DNA breaking-rejoining enzymes	8053767	3001127	SCOP2B (2022-06-29)
E [auth A]	SCOP2B Superfamily	lambda integrase clamp domain-like	8053776	3000550	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)
F [auth D]	NDC10_II_C_1	e3t79D1	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: NDC10_II_C_1	ECOD (1.6)
F [auth D]	NDC10_II_N	e3t79D3	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: NDC10_II_N	ECOD (1.6)
F [auth D]	Ndc10_1	e3t79D2	A: alpha arrays	X: lambda integrase-N-like	H: lambda integrase-N (From Topology)	T: lambda integrase-N	F: Ndc10_1	ECOD (1.6)
E [auth A]	NDC10_II_C_1	e3t79A3	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: NDC10_II_C_1	ECOD (1.6)
E [auth A]	NDC10_II_N	e3t79A2	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: NDC10_II_N	ECOD (1.6)
E [auth A]	Ndc10_1	e3t79A1	A: alpha arrays	X: lambda integrase-N-like	H: lambda integrase-N (From Topology)	T: lambda integrase-N	F: Ndc10_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth D]	1.10.150.540	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
F [auth D]	1.10.443.20	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.3.0)
E [auth A]	1.10.150.540	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
E [auth A]	1.10.443.20	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth D]	PF16787	Centromere DNA-binding protein complex CBF3 subunit, domain 2 (NDC10_II)	Centromere DNA-binding protein complex CBF3 subunit, domain 2	NDC10_II is a the second of five domains on the Kluyveromyces lactis Ndc10 protein. Each subunit of the Ndc10 dimer binds a separate fragment of DNA, suggesting that Ndc10 stabilises a DNA loop at the centromere [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth A], F [auth D]	KLLA0E03807p	DNA binding binding nucleic acid binding	-	-
D [auth F]	DNA (5'-D(PAPAPAPAPAPTPTPTPTPAPTPAPAPAP*T)-3')	-	-	-
C [auth E]	DNA (5'-D(PTPAPAPTPTPTPAPTPAPAPAPAPTPT)-3')	-	-	-
B [auth C]	DNA (5'-D(PAPAPAPTPTPTPTPAPTPAPAPAPTPTP*A)-3')	-	-	-
A [auth B]	DNA (5'-D(PTPTPAPAPTPTPTPAPTPAPAPAPAPTP*T)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth D]	IPR038279	Ndc10, domain 2 superfamily	Homologous Superfamily
E [auth A], F [auth D]	IPR031872	Ndc10, domain 2	Domain
E [auth A], F [auth D]	IPR022210	Transcription activator GCR1-like 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.