4KOP | pdb_00004kop

Crystal Structure of WHY2 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)
D	d4kopd_	Alpha and beta proteins (a+b)	ssDNA-binding transcriptional regulator domain	ssDNA-binding transcriptional regulator domain	automated matches	automated matches	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
C	d4kopc_	Alpha and beta proteins (a+b)	ssDNA-binding transcriptional regulator domain	ssDNA-binding transcriptional regulator domain	automated matches	automated matches	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
B	d4kopb_	Alpha and beta proteins (a+b)	ssDNA-binding transcriptional regulator domain	ssDNA-binding transcriptional regulator domain	automated matches	automated matches	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d4kopa1	Alpha and beta proteins (a+b)	ssDNA-binding transcriptional regulator domain	ssDNA-binding transcriptional regulator domain	automated matches	automated matches	mouse-ear cress,thale-cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d4kopa2	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)
D	SCOP2B Superfamily	ssDNA-binding transcriptional regulator domain	8088961	3000513	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ssDNA-binding transcriptional regulator domain	8088961	3000513	SCOP2B (2022-06-29)
B	SCOP2 Family	Plant transcriptional regulator PBF-2	8088960	4002553	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	ssDNA-binding transcriptional regulator domain	8088961	3000513	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	ssDNA-binding transcriptional regulator domain	8088961	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)
D	Sigma70_r2,Sigma70_ner	e4kopD1	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)
C	Sigma70_r2,Sigma70_ner	e4kopC1	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)
B	Sigma70_r2,Sigma70_ner	e4kopB1	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)
A	Sigma70_r2,Sigma70_ner	e4kopA1	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)
D	2.30.31.10	Mainly Beta	Roll	Transcriptional Co-activator pc4	Chain A	CATH (4.3.0)
C	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)
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, 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 WHY2, mitochondrial	DNA binding binding nucleic acid binding RNA binding mRNA binding single-stranded DNA binding	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 regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process 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 regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological 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 cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular response to stimulus response to stimulus DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair defense response	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex catalytic complex DNA repair complex

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 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.