3GBW | pdb_00003gbw

Crystal structure of the first PHR domain of the Mouse Myc-binding protein 2 (MYCBP-2)

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	PHR	e3gbwA1	A: beta sandwiches	X: jelly-roll	H: PHR domain (From Topology)	T: PHR domain	F: PHR	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.820	Mainly Beta	Sandwich	Jelly Rolls	PHR domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF08005	PHR domain (PHR)	PHR domain	This domain is called PHR as it was original found in the proteins PAM (Swiss:O75592), highwire (Swiss:Q9NB71) and RPM (Swiss:Q17551) [1]. This domain can be duplicated in the highwire, PFAM and PRM sequence. The C-terminal region of ...	This domain is called PHR as it was original found in the proteins PAM (Swiss:O75592), highwire (Swiss:Q9NB71) and RPM (Swiss:Q17551) [1]. This domain can be duplicated in the highwire, PFAM and PRM sequence. The C-terminal region of the protein BTBD1 includes the PHR domain and is known to interact with Topoisomerase I, an enzyme which relaxes DNA supercoils [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	E3 ubiquitin-protein ligase MYCBP2	small GTPase binding protein binding binding enzyme binding GTPase binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity small GTPase binding protein binding binding enzyme binding GTPase binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding identical protein binding	multicellular organismal process axonogenesis regulation of cellular process response to stimulus cell projection organization neuron projection development multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis taxis regulation of axon guidance cell differentiation anatomical structure development multicellular organismal process axonogenesis regulation of cellular process response to stimulus cell projection organization neuron projection development multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis taxis regulation of axon guidance cell differentiation anatomical structure development system development developmental process chemotaxis regulation of biological process regulation of cell projection organization response to external stimulus nervous system development generation of neurons regulation of response to stimulus response to chemical regulation of locomotion regulation of neuron projection development regulation of cellular component organization cellular developmental process regulation of response to external stimulus plasma membrane bounded cell projection morphogenesis cell development cell morphogenesis cellular component organization neurogenesis cellular component organization or biogenesis locomotion plasma membrane bounded cell projection organization biological regulation axon guidance axon development regulation of chemotaxis cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis neuron projection guidance neuron development cellular process regulation of plasma membrane bounded cell projection organization motor neuron axon guidance regulation of protein modification process positive regulation of protein metabolic process positive regulation of biological process regulation of protein ubiquitination positive regulation of post-translational protein modification regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification process protein ubiquitination positive regulation of macromolecule metabolic process protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process positive regulation of cellular process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of post-translational protein modification regulation of protein metabolic process primary metabolic process regulation of macromolecule metabolic process macromolecule modification metabolic process macromolecule metabolic process post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal central nervous system neuron development central nervous system neuron differentiation central nervous system projection neuron axonogenesis central nervous system neuron axonogenesis central nervous system development regulation of cytoskeleton organization regulation of organelle organization organelle organization cytoskeleton organization branchiomotor neuron axon guidance system process nervous system process neuromuscular process regulation of biosynthetic process rhythmic process circadian regulation of gene expression circadian rhythm gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process regulation of localization localization regulation of protein localization macromolecule localization intracellular protein localization protein polyubiquitination protein K48-linked ubiquitination catabolic process negative regulation of biological process macromolecule catabolic process negative regulation of protein catabolic process negative regulation of cellular process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of catabolic process negative regulation of metabolic process protein catabolic process regulation of catabolic process regulation of protein catabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton axon cell projection neuron projection plasma membrane bounded cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000408	Regulator of chromosome condensation, RCC1	Repeat
A	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A	IPR012983	PHR	Domain
A	IPR038648	PHR domain superfamily	Homologous Superfamily
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR009091	Regulator of chromosome condensation 1/beta-lactamase-inhibitor protein II	Homologous Superfamily
A	IPR017868	Filamin/ABP280 repeat-like	Repeat
A	IPR004939	APC10/DOC domain	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR001841	Zinc finger, RING-type	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.