7C9O | pdb_00007c9o

Crystal structure of DNA-bound CCT/NF-YB/YC complex (HD1CCT/GHD8/OsNF-YC2)

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)
C	SCOP2B Superfamily	Core histone-like	8097130	3001387	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Core histone-like	8099128	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)
C	Pro_isomerase	e7c9oC1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pro_isomerase	ECOD (v294.1)
B	Pro_isomerase	e7c9oB1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pro_isomerase	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF06203	CCT motif (CCT)	CCT motif	-	Motif
B	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	Zinc finger protein HD1	DNA binding binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process developmental process cellular developmental process cell differentiation response to light stimulus photoperiodism response to stimulus response to radiation response to abiotic stimulus short-day photoperiodism photoperiodism, flowering multicellular organismal process reproductive system development reproductive process vegetative to reproductive phase transition of meristem developmental process involved in reproduction multicellular organism development regulation of response to stimulus anatomical structure development reproductive structure development post-embryonic development regulation of photoperiodism, flowering system development positive regulation of short-day photoperiodism, flowering regulation of developmental process positive regulation of biological process positive regulation of response to stimulus positive regulation of developmental process regulation of short-day photoperiodism, flowering short-day photoperiodism, flowering regulation of multicellular organismal process regulation of multicellular organismal development regulation of post-embryonic development positive regulation of multicellular organismal process positive regulation of post-embryonic development long-day photoperiodism flower development reproductive shoot system development shoot system development regulation of long-day photoperiodism, flowering negative regulation of long-day photoperiodism, flowering negative regulation of post-embryonic development negative regulation of response to stimulus negative regulation of developmental process long-day photoperiodism, flowering negative regulation of multicellular organismal process regulation of reproductive process regulation of shoot system development regulation of flower development	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle
C	Nuclear transcription factor Y subunit C-2	DNA binding binding nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity protein heterodimerization activity protein binding protein dimerization activity	photoperiodism, flowering response to light stimulus multicellular organismal process regulation of developmental process response to stimulus reproductive process negative regulation of biological process regulation of long-day photoperiodism, flowering negative regulation of long-day photoperiodism, flowering developmental process involved in reproduction negative regulation of post-embryonic development multicellular organism development photoperiodism anatomical structure development photoperiodism, flowering response to light stimulus multicellular organismal process regulation of developmental process response to stimulus reproductive process negative regulation of biological process regulation of long-day photoperiodism, flowering negative regulation of long-day photoperiodism, flowering developmental process involved in reproduction negative regulation of post-embryonic development multicellular organism development photoperiodism anatomical structure development reproductive structure development regulation of multicellular organismal process post-embryonic development long-day photoperiodism system development developmental process regulation of biological process regulation of multicellular organismal development reproductive system development negative regulation of response to stimulus negative regulation of developmental process biological regulation vegetative to reproductive phase transition of meristem regulation of post-embryonic development long-day photoperiodism, flowering regulation of response to stimulus response to radiation response to abiotic stimulus negative regulation of multicellular organismal process regulation of photoperiodism, flowering regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process flower development reproductive shoot system development shoot system development	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
D	DNA (25-MER)	-	-	-
E	DNA (25-MER)	-	-	-
B	Nuclear transcription factor Y subunit B-11	DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity protein heterodimerization activity protein binding binding protein dimerization activity sequence-specific DNA binding DNA binding nucleic acid binding DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity	developmental process multicellular organismal process reproductive system development reproductive process flower development developmental process involved in reproduction reproductive shoot system development multicellular organism development anatomical structure development reproductive structure development shoot system development post-embryonic development system development photoperiodism, flowering developmental process multicellular organismal process reproductive system development reproductive process flower development developmental process involved in reproduction reproductive shoot system development multicellular organism development anatomical structure development reproductive structure development shoot system development post-embryonic development system development photoperiodism, flowering response to light stimulus regulation of developmental process response to stimulus negative regulation of biological process regulation of long-day photoperiodism, flowering negative regulation of long-day photoperiodism, flowering negative regulation of post-embryonic development photoperiodism regulation of multicellular organismal process long-day photoperiodism regulation of biological process regulation of multicellular organismal development negative regulation of response to stimulus negative regulation of developmental process biological regulation vegetative to reproductive phase transition of meristem regulation of post-embryonic development long-day photoperiodism, flowering regulation of response to stimulus response to radiation response to abiotic stimulus negative regulation of multicellular organismal process regulation of photoperiodism, flowering regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process regulation of growth regulation of cellular component organization cellular developmental process developmental growth unidimensional cell growth positive regulation of biological process cell development regulation of cell differentiation cell morphogenesis cell growth regulation of cell morphogenesis regulation of cell development cellular component organization positive regulation of developmental process positive regulation of cell differentiation cell differentiation cellular component organization or biogenesis positive regulation of unidimensional cell growth positive regulation of developmental growth regulation of anatomical structure morphogenesis positive regulation of cellular process regulation of developmental growth growth positive regulation of cell development positive regulation of cell growth regulation of cell growth developmental growth involved in morphogenesis positive regulation of cell morphogenesis regulation of unidimensional cell growth anatomical structure morphogenesis positive regulation of growth	RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure CCAAT-binding factor complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000315	B-box-type zinc finger	Domain
A	IPR010402	CCT domain	Domain
A	IPR049808	CONSTANS-like, B-box-type 1 zinc finger	Domain
A	IPR045281	Zinc finger protein CONSTANS-like	Family
C	IPR009072	Histone-fold	Homologous Superfamily
C	IPR007125	Core Histone H2A/H2B/H3 domain	Domain
C	IPR050568	Transcription/DNA replication regulator	Family
B	IPR009072	Histone-fold	Homologous Superfamily
B	IPR027113	Transcription factor NFYB/HAP3	Family
B	IPR003956	Transcription factor, NFYB/HAP3, conserved site	Conserved Site
B	IPR003958	Transcription factor CBF/NF-Y/archaeal histone 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.