5T5K | pdb_00005t5k

Structure of histone-based chromatin in Archaea

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)
A	SCOP2B Superfamily	Core histone-like	8058011	3001387	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Core histone-like	8058011	3001387	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Core histone-like	8058011	3001387	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Core histone-like	8058011	3001387	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Core histone-like	8058011	3001387	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Core histone-like	8058011	3001387	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)
A	CBFD_NFYB_HMF	e5t5kA1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CBFD_NFYB_HMF	ECOD (1.6)
B	CBFD_NFYB_HMF	e5t5kB1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CBFD_NFYB_HMF	ECOD (1.6)
C	CBFD_NFYB_HMF	e5t5kC1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CBFD_NFYB_HMF	ECOD (1.6)
D	CBFD_NFYB_HMF	e5t5kD1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CBFD_NFYB_HMF	ECOD (1.6)
E	CBFD_NFYB_HMF	e5t5kE1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CBFD_NFYB_HMF	ECOD (1.6)
F	CBFD_NFYB_HMF	e5t5kF1	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: CBFD_NFYB_HMF	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
B	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
C	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
D	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
E	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
F	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00808	Histone-like transcription factor (CBF/NF-Y) and archaeal histone (CBFD_NFYB_HMF)	Histone-like transcription factor (CBF/NF-Y) and archaeal histone	This family includes archaebacterial histones and histone like transcription factors from eukaryotes.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	DNA-binding protein HMf-2	protein heterodimerization activity protein binding binding protein dimerization activity DNA binding double-stranded DNA binding nucleic acid binding identical protein binding protein homodimerization activity	cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis chromosome organization primary metabolic process DNA conformation change DNA metabolic process nucleic acid metabolic process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis chromosome organization primary metabolic process DNA conformation change DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA topological change organelle organization metabolic process macromolecule metabolic process	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome cytoplasm
G [auth I]	DNA (90-MER)	-	-	-
H [auth J]	DNA (90-MER)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR009072	Histone-fold	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR050947	Archaeal histone HMF	Family
A, B, C, D, E A, B, C, D, E, F	IPR050004	DNA-binding protein HMf-2-like	Family

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.