4KOO

Crystal Structure of WHY1 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)
C	d4kooc1	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)
C	d4kooc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
D	d4kood1	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)
D	d4kood2	Artifacts	Tags	Tags	Tags	C-terminal Tags	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d4kooa1	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	d4kooa2	Artifacts	Tags	Tags	Tags	C-terminal Tags	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
B	d4koob_	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)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2 Family	Plant transcriptional regulator PBF-2	8088954	4002553	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	ssDNA-binding transcriptional regulator domain	8088955	3000513	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	ssDNA-binding transcriptional regulator domain	8088955	3000513	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ssDNA-binding transcriptional regulator domain	8088955	3000513	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ssDNA-binding transcriptional regulator domain	8088955	3000513	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	PF08536	e4kooC1	A: a+b two layers	X: ssDNA-binding transcriptional regulator domain-like	H: ssDNA-binding transcriptional regulator domain (From Topology)	T: ssDNA-binding transcriptional regulator domain	F: PF08536	ECOD (1.6)
D	PF08536	e4kooD1	A: a+b two layers	X: ssDNA-binding transcriptional regulator domain-like	H: ssDNA-binding transcriptional regulator domain (From Topology)	T: ssDNA-binding transcriptional regulator domain	F: PF08536	ECOD (1.6)
A	PF08536	e4kooA1	A: a+b two layers	X: ssDNA-binding transcriptional regulator domain-like	H: ssDNA-binding transcriptional regulator domain (From Topology)	T: ssDNA-binding transcriptional regulator domain	F: PF08536	ECOD (1.6)
B	PF08536	e4kooB1	A: a+b two layers	X: ssDNA-binding transcriptional regulator domain-like	H: ssDNA-binding transcriptional regulator domain (From Topology)	T: ssDNA-binding transcriptional regulator domain	F: PF08536	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.30.31.10	Mainly Beta	Roll	Transcriptional Co-activator pc4	Chain A	CATH (4.3.0)
D	2.30.31.10	Mainly Beta	Roll	Transcriptional Co-activator pc4	Chain A	CATH (4.3.0)
A	2.30.31.10	Mainly Beta	Roll	Transcriptional Co-activator pc4	Chain A	CATH (4.3.0)
B	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, B, C, D	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, B, C, D	Single-stranded DNA-binding protein WHY1, chloroplastic	DNA binding binding organic cyclic compound binding nucleic acid binding RNA binding mRNA binding sequence-specific DNA binding telomeric DNA binding single-stranded DNA binding	cellular response to stimulus cellular response to salicylic acid stimulus regulation of biological process response to organic substance regulation of cellular process response to stimulus signaling biological regulation cellular response to organic cyclic compound 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 response to stimulus cellular response to salicylic acid stimulus regulation of biological process response to organic substance regulation of cellular process response to stimulus signaling biological regulation cellular response to organic cyclic compound 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 cellular response to organic substance salicylic acid mediated signaling pathway response to organic cyclic compound cellular biosynthetic 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 organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process cellular metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound 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 regulation of telomere maintenance regulation of cellular component organization telomere organization cellular component organization cellular component organization or biogenesis chromosome organization regulation of chromosome organization regulation of organelle organization telomere maintenance organelle organization regulation of DNA metabolic process systemic acquired resistance biological process involved in interspecies interaction between organisms response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to other organism response to external biotic stimulus negative regulation of telomere maintenance negative regulation of biological process negative regulation of telomere maintenance via telomerase regulation of DNA biosynthetic process negative regulation of cellular metabolic process RNA-templated DNA biosynthetic process telomere maintenance via telomere lengthening negative regulation of chromosome organization negative regulation of nucleobase-containing compound metabolic process negative regulation of cellular component organization negative regulation of metabolic process regulation of telomere maintenance via telomere lengthening negative regulation of cellular biosynthetic process negative regulation of macromolecule biosynthetic process DNA biosynthetic process negative regulation of DNA biosynthetic process negative regulation of telomere maintenance via telomere lengthening negative regulation of cellular process negative regulation of macromolecule metabolic process telomere maintenance via telomerase regulation of telomere maintenance via telomerase negative regulation of organelle organization negative regulation of biosynthetic process negative regulation of DNA metabolic process	membrane-bounded organelle intracellular anatomical structure plastid plastid nucleoid nucleoid cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle chloroplast nucleoid plastid stroma organelle intracellular non-membrane-bounded organelle chloroplast stroma cytoplasm membrane-bounded organelle intracellular anatomical structure plastid plastid nucleoid nucleoid cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle chloroplast nucleoid plastid stroma organelle intracellular non-membrane-bounded organelle chloroplast stroma cytoplasm non-membrane-bounded organelle chloroplast protein-containing complex catalytic complex DNA repair complex extracellular region chromosome chromosome, telomeric region chromosomal region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR009044	ssDNA-binding transcriptional regulator	Homologous Superfamily
A, B, C, D	IPR013742	Whirly transcription factor	Family

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.