4ZEY

Crystal structure of a nuclear receptor binding factor 2 MIT domain (NRBF2) from Homo sapiens at 1.50 A resolution

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4zeya1	All alpha proteins	Spectrin repeat-like	MIT domain-like	MIT domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d4zeya2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	MIT domain	8087506	4001181	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	MIT domain-like	8087507	3000999	SCOP2 (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	NRBF2_MIT	e4zeyA1	A: alpha bundles	X: Spectrin repeat-like	H: MIT domain (From Topology)	T: MIT domain	F: NRBF2_MIT	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.58.80	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF17169	MIT domain of nuclear receptor-binding factor 2 (NRBF2_MIT)	MIT domain of nuclear receptor-binding factor 2	This MIT domain is the microtubule interaction and trafficking of nuclear receptor-binding factor 2 - NRBF2 - in higher eukaryotes. It is a coiled-coil region at the N-terminus of Pfam:PF08961 [1]. NRBF2 plays an essential role in autophagy, the cell ...	This MIT domain is the microtubule interaction and trafficking of nuclear receptor-binding factor 2 - NRBF2 - in higher eukaryotes. It is a coiled-coil region at the N-terminus of Pfam:PF08961 [1]. NRBF2 plays an essential role in autophagy, the cellular pathway that degrades long-lived proteins and other cytoplasmic contents through lysosomes. NRBF2 binds Atg14L - a Beclin-binding protein - directly via the MIT domain and enhances Atg14L-linked Vps34 kinase (a class III phosphatidylinositol-3 kinase) activity and autophagy induction [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Nuclear receptor-binding factor 2	-	regulation of biological process regulation of cellular process regulation of catalytic activity phosphorylation biological regulation regulation of transferase activity regulation of molecular function regulation of lipid kinase activity regulation of kinase activity regulation of phosphate metabolic process phosphate-containing compound metabolic process regulation of phosphorylation regulation of phosphorus metabolic process cellular process regulation of biological process regulation of cellular process regulation of catalytic activity phosphorylation biological regulation regulation of transferase activity regulation of molecular function regulation of lipid kinase activity regulation of kinase activity regulation of phosphate metabolic process phosphate-containing compound metabolic process regulation of phosphorylation regulation of phosphorus metabolic process cellular process metabolic process phosphorus metabolic process regulation of metabolic process cellular response to stimulus cellular response to stress response to stimulus response to stress response to endoplasmic reticulum stress catabolic process autophagy process utilizing autophagic mechanism	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle vacuole autophagosome phosphatidylinositol 3-kinase complex transferase complex, transferring phosphorus-containing groups membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle vacuole autophagosome phosphatidylinositol 3-kinase complex transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex membrane membrane protein complex phosphatidylinositol 3-kinase complex, class III transferase complex extrinsic component of membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR039679	Nuclear receptor-binding factor 2	Family
A	IPR015056	Nuclear receptor-binding factor 2, C-terminal	Domain
A	IPR033393	Nuclear receptor-binding factor 2, MIT domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q96F24	adenoma gallbladder disease medulloblastoma psoriasis atopic eczema large cell medulloblastoma ovarian cancer Sjogren syndrome atypical teratoid rhabdoid tumor malignant glioma pancreatic ductal adenocarcinoma

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.