7C9P | pdb_00007c9p

Crystal structure of rice histone-fold dimer GHD8/OsNF-YC2

External Resource: Annotation

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

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d7c9pd_	All alpha proteins	Histone-fold	Histone-fold	TBP-associated factors, TAFs	automated matches	Rice (Oryza sativa Japonica Group ) [TaxId: 39947 ],	SCOPe (2.08)
B	d7c9pb_	All alpha proteins	Histone-fold	Histone-fold	TBP-associated factors, TAFs	automated matches	Rice (Oryza sativa Japonica Group ) [TaxId: 39947 ],	SCOPe (2.08)
C	d7c9pc_	All alpha proteins	Histone-fold	Histone-fold	TBP-associated factors, TAFs	automated matches	Rice (Oryza sativa Japonica Group ) [TaxId: 39947 ],	SCOPe (2.08)
A	d7c9pa_	All alpha proteins	Histone-fold	Histone-fold	TBP-associated factors, TAFs	automated matches	Rice (Oryza sativa Japonica Group ) [TaxId: 39947 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2 Family	TBP-associated factors, TAFs	8097129	4000797	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	Core histone-like	8097130	3001387	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Core histone-like	8097130	3001387	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Core histone-like	8099128	3001387	SCOP2B (2022-06-29)
A	SCOP2 Family	TBP-associated factors, TAFs	8099127	4000797	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Core histone-like	8099128	3001387	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Pro_isomerase	e7c9pD1	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	e7c9pB1	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)
C	Pro_isomerase	e7c9pC1	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)
A	Pro_isomerase	e7c9pA1	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, C	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
B, D	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
A, C	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
B, D	IPR009072	Histone-fold	Homologous Superfamily
B, D	IPR007125	Core Histone H2A/H2B/H3 domain	Domain
B, D	IPR050568	Transcription/DNA replication regulator	Family
A, C	IPR009072	Histone-fold	Homologous Superfamily
A, C	IPR027113	Transcription factor NFYB/HAP3	Family
A, C	IPR003956	Transcription factor, NFYB/HAP3, conserved site	Conserved Site
A, C	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.