6SDG | pdb_00006sdg

Crystal structure of the DNA binding domain of M. polymorpha Auxin Response Factor 2 (MpARF2) in complex with High Affinity DNA

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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		e6sdgA1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F:	ECOD (v294.1)
B	Lipocalin	e6sdgB1	A: a/b three-layered sandwiches	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: Lipocalin	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.330.10	Mainly Beta	Beta Barrel	At1g16640 B3 domain	DNA-binding pseudobarrel domain	CATH (utative)
A	2.30.30.1040	Mainly Beta	Roll	SH3 type barrels.		CATH (utative)
B	2.40.330.10	Mainly Beta	Beta Barrel	At1g16640 B3 domain	DNA-binding pseudobarrel domain	CATH (utative)
B	2.30.30.1040	Mainly Beta	Roll	SH3 type barrels.		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF06507	Auxin response factor ancillary domain (ARF_AD)	Auxin response factor ancillary domain	This entry represents the C-terminal ancillary domain (AD) of Auxin Response Factor (ARF) transcription factors. ARFs are modular transcription factors consisting of three main regions: an N-terminal DNA-binding domain (DBD) which includes a B3 domai ...	This entry represents the C-terminal ancillary domain (AD) of Auxin Response Factor (ARF) transcription factors. ARFs are modular transcription factors consisting of three main regions: an N-terminal DNA-binding domain (DBD) which includes a B3 domain embedded within a dimerization domain (DD), followed by a middle region that determines transcriptional activity, and finally a C-terminal protein-protein interaction domain (PB1/III/IV). The ancillary domain represented by this entry forms a small five-stranded beta-barrel-like structure that tightly interacts with the dimerization domain.	Domain
A, B	PF02362	B3 DNA binding domain (B3)	B3 DNA binding domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	21-7_A	-	-	-
D	21-7_B	-	-	-
A, B	Auxin response factor	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid 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 auxin-activated signaling pathway cellular response to stimulus response to stimulus signaling response to endogenous stimulus hormone-mediated signaling pathway cellular response to auxin stimulus cell communication response to auxin cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical signal transduction cellular response to hormone stimulus	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	IPR033389	AUX/IAA domain	Domain
A, B	IPR015300	DNA-binding pseudobarrel domain superfamily	Homologous Superfamily
A, B	IPR003340	B3 DNA binding domain	Domain
A, B	IPR044835	Auxin response factor	Family
A, B	IPR010525	Auxin response factor domain	Domain
A, B	IPR053793	PB1-like 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.