4KOQ | pdb_00004koq

Crystal Structure of WHY3 from Arabidopsis thaliana

External Resource: Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4koqa1	Alpha and beta proteins (a+b)	ssDNA-binding transcriptional regulator domain	ssDNA-binding transcriptional regulator domain	Plant transcriptional regulator PBF-2	automated matches	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d4koqa2	Artifacts	Tags	Tags	Tags	C-terminal Tags	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Plant transcriptional regulator PBF-2	8088956	4002553	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ssDNA-binding transcriptional regulator domain	8088957	3000513	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)
A	Sigma70_r2,Sigma70_ner	e4koqA1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: Sigma70_r2,Sigma70_ner	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.30.31.10	Mainly Beta	Roll	Transcriptional Co-activator pc4	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF08536	Whirly transcription factor (Whirly)	Whirly transcription factor	This family contains the plant whirly transcription factors.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Single-stranded DNA-binding protein WHY3, chloroplastic	DNA binding binding nucleic acid binding RNA binding mRNA binding single-stranded DNA binding	cellular response to stimulus cellular response to salicylic acid stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation response to oxygen-containing compound cellular response to oxygen-containing compound response to salicylic acid cell communication cellular response to chemical stimulus response to chemical cellular process cellular response to stimulus cellular response to salicylic acid stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation response to oxygen-containing compound cellular response to oxygen-containing compound response to salicylic acid cell communication cellular response to chemical stimulus response to chemical cellular process signal transduction salicylic acid mediated signaling pathway 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 regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process 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 metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair defense response	membrane-bounded organelle intracellular anatomical structure plastid plastid nucleoid intracellular membraneless organelle nucleoid intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure chloroplast nucleoid plastid stroma organelle membraneless organelle chloroplast stroma membrane-bounded organelle intracellular anatomical structure plastid plastid nucleoid intracellular membraneless organelle nucleoid intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure chloroplast nucleoid plastid stroma organelle membraneless organelle chloroplast stroma cytoplasm chloroplast mitochondrion protein-containing complex catalytic complex DNA repair complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR009044	ssDNA-binding transcriptional regulator	Homologous Superfamily
A	IPR013742	Whirly transcription factor	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.