1AJY | pdb_00001ajy

STRUCTURE AND MOBILITY OF THE PUT3 DIMER: A DNA PINCER, NMR, 13 STRUCTURES

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	d1ajya1	Small proteins	Zn2/Cys6 DNA-binding domain	Zn2/Cys6 DNA-binding domain	Zn2/Cys6 DNA-binding domain	PUT3	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
A	d1ajya2	Coiled coil proteins	Parallel coiled-coil	Leucine zipper domain	Leucine zipper domain	PUT3	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d1ajyb1	Small proteins	Zn2/Cys6 DNA-binding domain	Zn2/Cys6 DNA-binding domain	Zn2/Cys6 DNA-binding domain	PUT3	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d1ajyb2	Coiled coil proteins	Parallel coiled-coil	Leucine zipper domain	Leucine zipper domain	PUT3	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Zn2/Cys6 DNA-binding domain	8039011	3001104	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Leucine zipper-like	8039461	3001609	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Leucine zipper-like	8039461	3001609	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Zn2/Cys6 DNA-binding domain	8039011	3001104	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)
A	Zn_clus	e1ajyA1	A: few secondary structure elements	X: Zn2/Cys6 DNA-binding domain (From Topology)	H: Zn2/Cys6 DNA-binding domain (From Topology)	T: Zn2/Cys6 DNA-binding domain	F: Zn_clus	ECOD (1.6)
B	Zn_clus	e1ajyB1	A: few secondary structure elements	X: Zn2/Cys6 DNA-binding domain (From Topology)	H: Zn2/Cys6 DNA-binding domain (From Topology)	T: Zn2/Cys6 DNA-binding domain	F: Zn_clus	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	4.10.240.10	Few Secondary Structures	Irregular	CD2-Gal4	Zn(2)-C6 fungal-type DNA-binding domain	CATH (4.3.0)
A	1.20.5.460	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Single helix bin	CATH (4.3.0)
B	4.10.240.10	Few Secondary Structures	Irregular	CD2-Gal4	Zn(2)-C6 fungal-type DNA-binding domain	CATH (4.3.0)
B	1.20.5.460	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Single helix bin	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00172	Fungal Zn(2)-Cys(6) binuclear cluster domain (Zn_clus)	Fungal Zn(2)-Cys(6) binuclear cluster domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	PUT3	DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid 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 cation binding transition metal ion binding zinc ion binding DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid 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 cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity	regulation of cellular process oxoacid metabolic process regulation of proline metabolic process glutamine family amino acid catabolic process amino acid metabolic process organic acid metabolic process organic acid catabolic process regulation of primary metabolic process positive regulation of metabolic process regulation of small molecule metabolic process carboxylic acid catabolic process glutamate metabolic process positive regulation of amine metabolic process small molecule metabolic process regulation of cellular process oxoacid metabolic process regulation of proline metabolic process glutamine family amino acid catabolic process amino acid metabolic process organic acid metabolic process organic acid catabolic process regulation of primary metabolic process positive regulation of metabolic process regulation of small molecule metabolic process carboxylic acid catabolic process glutamate metabolic process positive regulation of amine metabolic process small molecule metabolic process regulation of proline catabolic process to glutamate amino acid catabolic process regulation of biological process dicarboxylic acid metabolic process primary metabolic process L-amino acid metabolic process amine metabolic process positive regulation of glutamate metabolic process alpha-amino acid catabolic process positive regulation of proline metabolic process metabolic process small molecule catabolic process regulation of metabolic process regulation of amine catabolic process regulation of glutamine family amino acid metabolic process positive regulation of amine catabolic process catabolic process positive regulation of biological process proline catabolic process alpha-amino acid metabolic process glutamine family amino acid metabolic process regulation of glutamate metabolic process proline metabolic process regulation of amino acid metabolic process amine catabolic process positive regulation of cellular process proline catabolic process to glutamate regulation of amine metabolic process biological regulation carboxylic acid metabolic process L-amino acid catabolic process regulation of catabolic process positive regulation of amino acid metabolic process positive regulation of catabolic process proteinogenic amino acid metabolic process positive regulation of proline catabolic process to glutamate proteinogenic amino acid catabolic process cellular process positive regulation of small molecule metabolic process cellular component organization organelle organization chromosome organization cellular component organization or biogenesis transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery RNA metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process macromolecule metabolic process positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR051127	Fungal Secondary Metabolite Regulators	Family
A, B	IPR036864	Zn(2)-C6 fungal-type DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR046347	Basic-leucine zipper domain superfamily	Homologous Superfamily
A, B	IPR007219	Transcription factor domain, fungi	Domain
A, B	IPR001138	Zn(2)Cys(6) fungal-type DNA-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.