7YHQ

CryoEM structure of Arabidopsis ROS1 in complex with a covalent-linked reaction intermediate at 3.9 Angstroms resolution

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF15628	RRM in Demeter (RRM_DME)	RRM in Demeter	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Sex-determining region Y protein,DNA glycosylase/AP lyase ROS1	DNA binding binding organic cyclic compound binding nucleic acid binding DNA demethylase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity demethylase activity DNA-(apurinic or apyrimidinic site) endonuclease activity class I DNA-(apurinic or apyrimidinic site) endonuclease activity lyase activity carbon-oxygen lyase activity hydrolase activity, acting on glycosyl bonds DNA binding binding organic cyclic compound binding nucleic acid binding DNA demethylase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity demethylase activity DNA-(apurinic or apyrimidinic site) endonuclease activity class I DNA-(apurinic or apyrimidinic site) endonuclease activity lyase activity carbon-oxygen lyase activity hydrolase activity, acting on glycosyl bonds hydrolase activity DNA N-glycosylase activity hydrolase activity, hydrolyzing N-glycosyl compounds iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity transcription factor binding protein binding DNA-binding transcription factor binding sequence-specific DNA binding double-stranded DNA binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding calmodulin binding	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair base-excision repair biological process involved in interspecies interaction between organisms response to other organism defense response response to external stimulus response to biotic stimulus defense response to fungus defense response to other organism response to external biotic stimulus response to fungus DNA modification DNA demethylation DNA dealkylation macromolecule modification demethylation developmental process cellular developmental process cell differentiation reproductive process sex differentiation developmental process involved in reproduction multicellular organism development multicellular organismal process sex determination male sex determination anatomical structure development regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process cellular metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process regulation of metabolic process positive regulation of cellular biosynthetic process regulation of primary metabolic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of RNA metabolic process organic cyclic compound biosynthetic process regulation of DNA-templated transcription positive regulation of DNA-templated transcription RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process positive regulation of RNA biosynthetic process regulation of developmental process regulation of gonad development regulation of reproductive process male gonad development male sex differentiation positive regulation of developmental process development of primary male sexual characteristics development of primary sexual characteristics positive regulation of male gonad development reproductive structure development regulation of multicellular organismal process regulation of male gonad development system development positive regulation of reproductive process gonad development reproductive system development animal organ development positive regulation of gonad development positive regulation of multicellular organismal process negative regulation of biological process negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of biosynthetic process positive regulation of transcription by RNA polymerase II anatomical structure morphogenesis	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen non-membrane-bounded organelle nuclear speck nuclear body nucleoplasm cytoplasm protein-containing complex protein-DNA complex chromatin chromosome
B	DNA (40-MER)	-	-	-
C	DNA (40-MER)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR044811	DNA glycosylase, plant	Family
A	IPR003265	HhH-GPD domain	Domain
A	IPR023170	Helix-hairpin-helix, base-excision DNA repair, C-terminal	Homologous Superfamily
A	IPR011257	DNA glycosylase	Homologous Superfamily
A	IPR003651	Endonuclease III-like, iron-sulphur cluster loop motif	Conserved Site
A	IPR028924	Permuted single zf-CXXC unit	Domain
A	IPR028925	Demeter, RRM-fold domain	Domain
A	IPR017253	Transcription factor SRY	Family
A	IPR009071	High mobility group box domain	Domain
A	IPR036910	High mobility group box domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q05066	46,XY complete gonadal dysgenesis 46,XX sex reversal 1 46,XX ovotesticular disorder of sex development 46,XY sex reversal 1 46,XY partial gonadal dysgenesis gonadal dysgenesis mixed gonadal dysgenesis True Hermaphroditism (disorder) intellectual disability 46,XX testicular disorder of sex development large cell medulloblastoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C	PED	RESID: AA0494 PSI-MOD : N-(DNA-1',2'-dideoxyribos-1'-ylidene)-L-prolinium MOD:01454

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 R01GM133198.