5Z7L | pdb_00005z7l

Crystal structure of NDP52 SKICH region in complex with NAP1

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Cytochrom_B562	e5z7lB1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: Cytochrom_B562	ECOD (v294.1)
A	Mannosidase_ig	e5z7lA1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: Mannosidase_ig	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.60.40.2840	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
A	2.60.40.2840	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF17751	SKICH domain (SKICH)	SKICH domain	The SKICH domains of SKIP and PIPP mediate plasma membrane localisation. The functions of the SKICH domains of NDP52 and CALCOCO1 are not known.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Calcium-binding and coiled-coil domain-containing protein 2	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response response to type II interferon response to cytokine defense response to symbiont response to external stimulus response to biotic stimulus response to peptide response to chemical immune system process defense response to other organism response to stress biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response response to type II interferon response to cytokine defense response to symbiont response to external stimulus response to biotic stimulus response to peptide response to chemical immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus viral process positive regulation of organelle organization catabolic process regulation of cellular process regulation of cellular component organization positive regulation of cellular component organization regulation of autophagosome maturation macroautophagy autophagy positive regulation of biological process protein-containing complex disassembly regulation of autophagy regulation of protein-containing complex disassembly cellular component organization positive regulation of metabolic process autophagosome maturation cellular component organization or biogenesis positive regulation of macroautophagy process utilizing autophagic mechanism positive regulation of protein-containing complex disassembly positive regulation of cellular process cellular component disassembly positive regulation of autophagy regulation of biological process protein-containing complex organization biological regulation regulation of catabolic process positive regulation of autophagosome maturation regulation of organelle organization positive regulation of catabolic process organelle organization regulation of macroautophagy cellular process metabolic process regulation of metabolic process xenophagy	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle vacuole autophagosome vacuolar membrane autophagosome membrane membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle vacuole autophagosome vacuolar membrane autophagosome membrane membrane bounding membrane of organelle organelle membrane cytoskeleton membraneless organelle intracellular membraneless organelle cytosol perinuclear region of cytoplasm nucleus membrane-enclosed lumen intracellular organelle lumen nuclear body nucleoplasm organelle lumen PML body nuclear lumen
C, D	5-azacytidine-induced protein 2	-	cellular process cell cycle mitotic cell cycle multicellular organismal process T cell activation immune system process cell activation lymphocyte activation leukocyte activation developmental process cellular developmental process hemopoiesis cell differentiation anatomical structure development cellular process cell cycle mitotic cell cycle multicellular organismal process T cell activation immune system process cell activation lymphocyte activation leukocyte activation developmental process cellular developmental process hemopoiesis cell differentiation anatomical structure development cell development dendritic cell differentiation mononuclear cell differentiation leukocyte differentiation cell population proliferation mononuclear cell proliferation dendritic cell proliferation leukocyte proliferation biological process involved in interspecies interaction between organisms defense response to virus response to stimulus defense response response to other organism response to stress response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus cellular response to stimulus regulation of cellular process signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process negative regulation of canonical NF-kappaB signal transduction regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette negative regulation of cellular process signal transduction regulation of biological process regulation of signaling negative regulation of response to stimulus biological regulation negative regulation of signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction response to cytokine cytokine-mediated signaling pathway interferon-mediated signaling pathway cellular response to type I interferon innate immune response cellular response to cytokine stimulus cell surface receptor signaling pathway immune response defense response to symbiont response to peptide response to chemical defense response to other organism type I interferon-mediated signaling pathway response to type I interferon	cellular anatomical structure intracellular anatomical structure cytoplasm protein kinase complex transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex serine/threonine protein kinase complex transferase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR041611	SKICH domain	Domain
A, B	IPR051002	Ubiquitin-binding and autophagy-associated domain-containing protein	Family
A, B	IPR041641	CALCOCO1/2, zinc finger UBZ1-type	Domain
C, D	IPR024581	Tbk1/Ikki binding domain	Domain
C, D	IPR051891	TBK1 and IKBKE adapter proteins	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q13137	colorectal cancer breast cancer Colorectal Neoplasms lung cancer plasma cell myeloma heart disease malignant glioma colorectal carcinoma large cell medulloblastoma ovarian cancer
C, D	Pharos: Q9H6S1	adenoma large cell medulloblastoma non-small cell lung carcinoma pancreatic ductal adenocarcinoma primitive neuroectodermal tumor atypical teratoid rhabdoid tumor malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia rheumatoid arthritis glioblastoma medulloblastoma ovarian cancer pituitary cancer

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.