5NQV | pdb_00005nqv

Structure of the Arabidopsis Thaliana TOPLESS N-terminal domain

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)
D	Phage_integrase	e5nqvD2	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: SSHS domain in CRISPR-associated endonuclease Cas9	T: SSHS domain in CRISPR-associated endonuclease Cas9	F: Phage_integrase	ECOD (v294.1)
D		e5nqvD3	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F:	ECOD (v294.1)
C	Phage_integrase	e5nqvC1	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: SSHS domain in CRISPR-associated endonuclease Cas9	T: SSHS domain in CRISPR-associated endonuclease Cas9	F: Phage_integrase	ECOD (v294.1)
C		e5nqvC2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F:	ECOD (v294.1)
B	Phage_integrase	e5nqvB2	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: SSHS domain in CRISPR-associated endonuclease Cas9	T: SSHS domain in CRISPR-associated endonuclease Cas9	F: Phage_integrase	ECOD (v294.1)
B		e5nqvB3	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F:	ECOD (v294.1)
A	Phage_integrase	e5nqvA2	A: a/b three-layered sandwiches	X: Carbon-nitrogen hydrolase-like	H: SSHS domain in CRISPR-associated endonuclease Cas9	T: SSHS domain in CRISPR-associated endonuclease Cas9	F: Phage_integrase	ECOD (v294.1)
A		e5nqvA3	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F:	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF21889	TPR1-like, CTLH-containing domain (TPR1-like_2nd)	TPR1-like, CTLH-containing domain	This domain is found in Protein TPR1 from Oryza sativa, also known as Topless-related protein 2, and in similar sequences predominantly found in plants and some fungal species. TPR1 is thought to be a downstream regulator of strigolactones signalling ...	This domain is found in Protein TPR1 from Oryza sativa, also known as Topless-related protein 2, and in similar sequences predominantly found in plants and some fungal species. TPR1 is thought to be a downstream regulator of strigolactones signalling. This entry represents the second part of the N-terminal domain of TPR1, which contains the C-terminal to LisH (CTLH) motif, responsible for the binding to the auxin-responsive protein 12 (IAA12) [1-5]. This domain shows an all-alpha configuration.	Domain
A, B, C, D	PF17814	LisH-like dimerisation domain (LisH_TPL)	LisH-like dimerisation domain	TOPLESS (TPL) proteins have a highly conserved N-terminal domain containing a lissencephaly homologous (LisH) dimerization motif [1].	Domain
A, B, C, D	PF21359	TOPLESS, zinc finger domain (zf_topless)	TOPLESS, zinc finger domain	This is the zinc finger domain of TOPLESS and TOPLESS-related proteins, plant transcriptional co-repressors [1-3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F, G, H	EAR motif of IAA27	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 transcription regulator activity DNA-binding transcription factor activity identical protein binding protein binding	auxin-activated signaling pathway cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling response to endogenous stimulus biological regulation 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 auxin-activated signaling pathway cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling response to endogenous stimulus biological regulation 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 cellular process signal transduction cellular response to hormone stimulus	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle
A, B, C, D	Protein TOPLESS	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic 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 negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to auxin response to stimulus response to hormone response to endogenous stimulus response to chemical meristem initiation reproductive process developmental process involved in reproduction embryo development fruit development embryo development ending in seed dormancy seed development reproductive structure development post-embryonic development system development reproductive system development primary shoot apical meristem specification shoot system morphogenesis tissue development anatomical structure morphogenesis meristem development embryonic meristem initiation anatomical structure arrangement shoot system development meristem structural organization embryonic meristem development cellular response to stimulus response to lipid signaling hormone-mediated signaling pathway cell communication cellular response to endogenous stimulus cellular response to jasmonic acid stimulus signal transduction cellular response to hormone stimulus response to jasmonic acid response to fatty acid response to oxygen-containing compound jasmonic acid mediated signaling pathway cellular response to oxygen-containing compound cellular response to fatty acid cellular response to chemical stimulus cellular response to lipid	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
E, F, G, H	IPR003311	AUX/IAA protein	Family
E, F, G, H	IPR033389	AUX/IAA domain	Domain
E, F, G, H	IPR053793	PB1-like domain	Domain
A, B, C, D	IPR054532	TPL/SMU1, LisH-like dimerisation domain	Domain
A, B, C, D	IPR019775	WD40 repeat, conserved site	Conserved Site
A, B, C, D	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, B, C, D	IPR006595	CTLH, C-terminal LisH motif	Domain
A, B, C, D	IPR048419	TOPLESS, zinc finger domain	Domain
A, B, C, D	IPR001680	WD40 repeat	Repeat
A, B, C, D	IPR054080	TPR1-like, CTLH-containing domain	Domain
A, B, C, D	IPR027728	Topless family	Family
A, B, C, D	IPR006594	LIS1 homology motif	Conserved Site
A, B, C, D	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily

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.