6M79 | pdb_00006m79

Cryo-EM structure of Arabidopsis CRY under blue light-mediated activation

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A		e6m79A1	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:	ECOD (v294.1)
B		e6m79B1	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:	ECOD (v294.1)
C		e6m79C1	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:	ECOD (v294.1)
D		e6m79D1	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:	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00875	DNA photolyase (DNA_photolyase)	DNA photolyase	This domain binds a light harvesting cofactor.	Domain
A, B, C, D	PF03441	FAD binding domain of DNA photolyase (FAD_binding_7)	FAD binding domain of DNA photolyase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Cryptochrome-2	FAD binding flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding adenyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding purine nucleotide binding adenyl nucleotide binding FAD binding flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding adenyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding purine nucleotide binding adenyl nucleotide binding ATP binding carbohydrate derivative binding ribonucleotide binding DNA binding nucleic acid binding DNA photolyase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid deoxyribodipyrimidine photo-lyase activity lyase activity catalytic activity carbon-carbon lyase activity identical protein binding protein binding protein homodimerization activity protein dimerization activity blue light photoreceptor activity molecular transducer activity photoreceptor activity signaling receptor activity cation binding metal ion binding	developmental process multicellular organismal process regulation of biological process plant organ development regulation of developmental process biological regulation leaf morphogenesis shoot system morphogenesis plant organ morphogenesis multicellular organism development anatomical structure morphogenesis regulation of shoot system morphogenesis anatomical structure development regulation of leaf morphogenesis developmental process multicellular organismal process regulation of biological process plant organ development regulation of developmental process biological regulation leaf morphogenesis shoot system morphogenesis plant organ morphogenesis multicellular organism development anatomical structure morphogenesis regulation of shoot system morphogenesis anatomical structure development regulation of leaf morphogenesis leaf development shoot system development regulation of anatomical structure morphogenesis regulation of plant organ morphogenesis phyllome development system development response to acid chemical response to stimulus response to stress response to chemical response to oxygen-containing compound response to abiotic stimulus response to water response to water deprivation response to light stimulus response to radiation response to blue light rhythmic process circadian rhythm cellular response to stimulus regulation of cellular process intracellular receptor signaling pathway signaling cellular response to radiation intracellular signal transduction cellular response to environmental stimulus cell communication cellular response to light stimulus cellular process cellular response to abiotic stimulus signal transduction blue light signaling pathway cellular response to blue light photoperiodism, flowering reproductive system development reproductive process vegetative to reproductive phase transition of meristem developmental process involved in reproduction photoperiodism regulation of response to stimulus reproductive structure development post-embryonic development regulation of photoperiodism, flowering regulation of circadian rhythm long-day photoperiodism, flowering long-day photoperiodism stomatal movement regulation of biosynthetic process circadian regulation of gene expression regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process response to low light intensity stimulus response to light intensity response to low fluence blue light stimulus by blue low-fluence system reactive oxygen species metabolic process positive regulation of biological process positive regulation of reactive oxygen species metabolic process positive regulation of metabolic process positive regulation of cellular process regulation of reactive oxygen species metabolic process regulation of reproductive process positive regulation of developmental process reproductive shoot system development regulation of multicellular organismal process regulation of flower development positive regulation of reproductive process positive regulation of flower development regulation of multicellular organismal development regulation of shoot system development flower development regulation of post-embryonic development positive regulation of multicellular organismal process positive regulation of post-embryonic development phototropism tropism response to external stimulus response to lipid response to strigolactone entrainment of circadian clock entrainment of circadian clock by photoperiod regulation of growth regulation of developmental growth developmental growth growth tissue development regulation of meristem growth meristem development meristem maintenance meristem growth inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process calcium ion homeostasis regulation of cytosolic calcium ion concentration cellular homeostasis chemical homeostasis circadian regulation of calcium ion oscillation intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis response to absence of light biological process involved in interspecies interaction between organisms defense response to virus defense response response to other organism response to external biotic stimulus response to virus response to biotic stimulus nucleoside phosphate metabolic process flavin-containing compound metabolic process flavin adenine dinucleotide metabolic process primary metabolic process nucleotide metabolic process nucleobase-containing compound metabolic process organophosphate metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process small molecule metabolic process phosphorus metabolic process cellular component organization chromatin organization cellular component organization or biogenesis chromatin remodeling	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle plant-type vacuole vacuole intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular organelle lumen nuclear body cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle plant-type vacuole vacuole intracellular membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular organelle lumen nuclear body nucleoplasm organelle lumen membraneless organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR014134	Cryptochrome, plant	Family
A, B, C, D	IPR018394	Cryptochrome/DNA photolyase class 1, conserved site, C-terminal	Conserved Site
A, B, C, D	IPR014729	Rossmann-like alpha/beta/alpha sandwich fold	Homologous Superfamily
A, B, C, D	IPR036155	Cryptochrome/photolyase, N-terminal domain superfamily	Homologous Superfamily
A, B, C, D	IPR002081	Cryptochrome/DNA photolyase class 1	Family
A, B, C, D	IPR036134	Cryptochrome/DNA photolyase, FAD-binding domain-like superfamily	Homologous Superfamily
A, B, C, D	IPR006050	DNA photolyase, N-terminal	Domain
A, B, C, D	IPR005101	Cryptochrome/DNA photolyase, FAD-binding 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.