7MRN | pdb_00007mrn

Mouse CNTN5 APP complex

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)
D	APP_Cu_bd	e7mrnD2	A: a+b two layers	X: Dodecin subunit-like	H: Amyloid beta a4 protein copper binding domain (domain 2) (From Topology)	T: Amyloid beta a4 protein copper binding domain (domain 2)	F: APP_Cu_bd	ECOD (1.6)
D	APP_N	e7mrnD1	A: a+b complex topology	X: SRCR-like	H: A heparin-binding domain (From Topology)	T: A heparin-binding domain	F: APP_N	ECOD (1.6)
B [auth C]	APP_Cu_bd	e7mrnC2	A: a+b two layers	X: Dodecin subunit-like	H: Amyloid beta a4 protein copper binding domain (domain 2) (From Topology)	T: Amyloid beta a4 protein copper binding domain (domain 2)	F: APP_Cu_bd	ECOD (1.6)
B [auth C]	APP_N	e7mrnC1	A: a+b complex topology	X: SRCR-like	H: A heparin-binding domain (From Topology)	T: A heparin-binding domain	F: APP_N	ECOD (1.6)
C [auth B]	fn3	e7mrnB3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (1.6)
A	fn3	e7mrnA3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth B]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth C], D	PF02177	Amyloid A4 N-terminal heparin-binding (APP_N)	Amyloid A4 N-terminal heparin-binding	This N-terminal domain of APP, amyloid precursor protein, is the heparin-binding domain of the protein. this region is also responsible for stimulation of neurite outgrowth. The structure reveals both a highly charged basic surface that may interact ...	This N-terminal domain of APP, amyloid precursor protein, is the heparin-binding domain of the protein. this region is also responsible for stimulation of neurite outgrowth. The structure reveals both a highly charged basic surface that may interact with glycosaminoglycans in the brain and an abutting hydrophobic surface that is proposed to play an important functional role such as in dimerisation or ligand-binding. Structural similarities with cysteine-rich growth factors, taken together with its known growth-promoting properties, suggest the APP N-terminal domain could function as a growth factor in vivo [1].	Domain
B [auth C], D	PF12924	Copper-binding of amyloid precursor, CuBD (APP_Cu_bd)	Copper-binding of amyloid precursor, CuBD	This short domain, part of the extra-cellular N-terminus of the amyloid precursor protein, APP, can bind both copper and zinc, CuBD. The structure of Cu2+-bound CuBD reveals that the metal ligands are His147, His151, Tyr168 and two water molecules, ...	This short domain, part of the extra-cellular N-terminus of the amyloid precursor protein, APP, can bind both copper and zinc, CuBD. The structure of Cu2+-bound CuBD reveals that the metal ligands are His147, His151, Tyr168 and two water molecules, which are arranged in a square pyramidal geometry. The structure of Cu+-bound CuBD is almost identical to the Cu2+-bound structure except for the loss of one of the water ligands. The geometry of the site is unfavourable for Cu+, thus providing a mechanism by which CuBD could readily transfer Cu ions to other proteins.	Domain
A, C [auth B]	PF00041	Fibronectin type III domain (fn3)	Fibronectin type III domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C], D	N-APP	protein binding binding protein domain specific binding cation binding transition metal ion binding ion binding metal ion binding small molecule binding kinase binding enzyme binding protein kinase binding identical protein binding DNA binding sequence-specific DNA binding protein binding binding protein domain specific binding cation binding transition metal ion binding ion binding metal ion binding small molecule binding kinase binding enzyme binding protein kinase binding identical protein binding DNA binding sequence-specific DNA binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding enzyme regulator activity molecular function inhibitor activity peptidase regulator activity serine-type endopeptidase inhibitor activity molecular function regulator activity enzyme inhibitor activity peptidase inhibitor activity endopeptidase regulator activity endopeptidase inhibitor activity heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound binding molecular function activator activity signaling receptor regulator activity signaling receptor activator activity	biological regulation regulation of synapse structure or activity regulation of biological quality cellular component organization extracellular matrix organization cellular process cellular component organization or biogenesis extracellular structure organization external encapsulating structure organization behavior multicellular organismal process system process learning or memory nervous system process biological regulation regulation of synapse structure or activity regulation of biological quality cellular component organization extracellular matrix organization cellular process cellular component organization or biogenesis extracellular structure organization external encapsulating structure organization behavior multicellular organismal process system process learning or memory nervous system process cognition memory regulation of multicellular organism growth developmental process regulation of biological process regulation of growth regulation of developmental growth regulation of developmental process developmental growth growth multicellular organism growth regulation of multicellular organismal process axonogenesis cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis neurogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development system development plasma membrane bounded cell projection organization nervous system development axon development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron development cell growth collateral sprouting in absence of injury collateral sprouting developmental cell growth developmental growth involved in morphogenesis suckling behavior feeding behavior cellular response to stimulus regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling cell communication Notch signaling pathway signal transduction cell cycle G2/M phase transition mitotic cell cycle process G2/M transition of mitotic cell cycle cell cycle phase transition cell cycle mitotic cell cycle cell cycle process mitotic cell cycle phase transition cellular homeostasis neuron cellular homeostasis homeostatic process neuron recognition axon choice point recognition cell recognition axon midline choice point recognition axon guidance neuron projection guidance cellular localization transport intracellular transport establishment of localization localization axo-dendritic transport establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process central nervous system neuron differentiation central nervous system development neuromuscular process neuromuscular process controlling balance secondary alcohol metabolic process sterol metabolic process steroid metabolic process cholesterol metabolic process alcohol metabolic process small molecule metabolic process metabolic process primary metabolic process lipid metabolic process head development forebrain development animal organ development brain development biosynthetic process macromolecule metabolic process gene expression macromolecule biosynthetic process neuron apoptotic process apoptotic process cell death programmed cell death ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway glutamate receptor signaling pathway regulation of cellular component organization negative regulation of biological process regulation of presynapse assembly cellular component biogenesis regulation of nervous system development cellular component assembly regulation of presynapse organization negative regulation of cell junction assembly cell junction assembly negative regulation of cellular process negative regulation of nervous system development regulation of synapse assembly synapse organization regulation of multicellular organismal development negative regulation of cellular component organization negative regulation of developmental process presynapse organization negative regulation of synapse organization regulation of cellular component biogenesis regulation of cell junction assembly regulation of synapse organization cell junction organization negative regulation of presynapse assembly synapse assembly negative regulation of multicellular organismal process negative regulation of synapse assembly presynapse assembly positive regulation of biological process positive regulation of cell cycle regulation of mitotic cell cycle positive regulation of mitotic cell cycle regulation of cell cycle positive regulation of cellular process response to oxidative stress response to stress regulation of cell cycle phase transition positive regulation of mitotic cell cycle phase transition positive regulation of cell cycle process positive regulation of G2/M transition of mitotic cell cycle regulation of G2/M transition of mitotic cell cycle regulation of cell cycle process regulation of cell cycle G2/M phase transition positive regulation of cell cycle G2/M phase transition regulation of mitotic cell cycle phase transition positive regulation of cell cycle phase transition regulation of cell differentiation negative regulation of cell differentiation negative regulation of neuron differentiation regulation of neuron differentiation inorganic ion homeostasis intracellular copper ion homeostasis copper ion homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis developmental maturation neuron remodeling anatomical structure maturation neuron maturation cell maturation reproductive process multicellular organismal reproductive process reproductive behavior mating behavior regulation of biosynthetic process regulation of macromolecule metabolic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of metabolic process regulation of protein metabolic process translation protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of translation protein metabolic process cell adhesion positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription locomotory behavior adult locomotory behavior adult behavior cytosolic mRNA polyadenylation mRNA metabolic process import into cell endocytosis vesicle-mediated transport neuromuscular junction development synaptic assembly at neuromuscular junction response to light stimulus learning visual learning visual behavior associative learning response to radiation response to abiotic stimulus dendrite development intracellular calcium ion homeostasis smooth endoplasmic reticulum calcium ion homeostasis calcium ion homeostasis endoplasmic reticulum calcium ion homeostasis positive regulation of cell communication modulation of chemical synaptic transmission long-term synaptic potentiation synaptic signaling regulation of synaptic plasticity trans-synaptic signaling regulation of signaling cell-cell signaling positive regulation of synaptic transmission chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication positive regulation of signaling	somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body presynapse synapse cell junction presynaptic active zone cell-cell junction anchoring junction membrane-bounded organelle intracellular organelle intracellular anatomical structure somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body presynapse synapse cell junction presynaptic active zone cell-cell junction anchoring junction membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle endoplasmic reticulum smooth endoplasmic reticulum cytoplasm intracellular membrane-bounded organelle endomembrane system protein-containing complex receptor complex neuromuscular junction endosome intracellular vesicle recycling endosome cytoplasmic vesicle vesicle ciliary rootlet intracellular membraneless organelle cilium plasma membrane bounded cell projection cell projection cytoskeleton membraneless organelle transport vesicle synaptic vesicle secretory vesicle exocytic vesicle cell surface cell periphery plasma membrane membrane extracellular region clathrin-coated pit apical part of cell spindle spindle midzone microtubule cytoskeleton COPII-coated ER to Golgi transport vesicle coated vesicle neuron projection Golgi apparatus perinuclear region of cytoplasm axon Golgi-associated vesicle growth cone distal axon site of polarized growth early endosome nucleus
A, C [auth B]	Contactin-5	-	multicellular organismal process system process sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus cell adhesion cellular process developmental process presynapse organization nervous system development cellular component organization cellular component biogenesis multicellular organism development multicellular organismal process system process sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus cell adhesion cellular process developmental process presynapse organization nervous system development cellular component organization cellular component biogenesis multicellular organism development cell junction organization cellular component assembly cell junction assembly anatomical structure development synapse organization cellular component organization or biogenesis synapse assembly presynapse assembly system development	cellular anatomical structure membrane side of membrane cell periphery presynapse synapse cell junction plasma membrane presynaptic membrane plasma membrane region synaptic membrane GABA-ergic synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C], D	IPR013803	Amyloidogenic glycoprotein, amyloid-beta peptide	Domain
B [auth C], D	IPR008154	Amyloidogenic glycoprotein, extracellular	Domain
B [auth C], D	IPR036176	E2 domain superfamily	Homologous Superfamily
B [auth C], D	IPR024329	Amyloidogenic glycoprotein, E2 domain	Domain
B [auth C], D	IPR036669	Amyloidogenic glycoprotein, copper-binding domain superfamily	Homologous Superfamily
B [auth C], D	IPR019745	Amyloidogenic glycoprotein, intracellular domain, conserved site	Conserved Site
B [auth C], D	IPR011178	Amyloidogenic glycoprotein, copper-binding	Domain
B [auth C], D	IPR020901	Proteinase inhibitor I2, Kunitz, conserved site	Conserved Site
B [auth C], D	IPR019744	Amyloidogenic glycoprotein, copper-binding domain conserved site	Conserved Site
B [auth C], D	IPR002223	Pancreatic trypsin inhibitor Kunitz domain	Domain
B [auth C], D	IPR015849	Amyloidogenic glycoprotein, heparin-binding	Domain
B [auth C], D	IPR036454	Amyloidogenic glycoprotein, heparin-binding domain superfamily	Homologous Superfamily
B [auth C], D	IPR011993	PH-like domain superfamily	Homologous Superfamily
B [auth C], D	IPR019543	Beta-amyloid precursor protein C-terminal	Domain
B [auth C], D	IPR036880	Pancreatic trypsin inhibitor Kunitz domain superfamily	Homologous Superfamily
B [auth C], D	IPR008155	Amyloidogenic glycoprotein	Family
A, C [auth B]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, C [auth B]	IPR003598	Immunoglobulin subtype 2	Domain
A, C [auth B]	IPR003961	Fibronectin type III	Domain
A, C [auth B]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, C [auth B]	IPR003599	Immunoglobulin domain subtype	Domain
A, C [auth B]	IPR007110	Immunoglobulin-like domain	Domain
A, C [auth B]	IPR013098	Immunoglobulin I-set	Domain
A, C [auth B]	IPR036116	Fibronectin type III superfamily	Homologous Superfamily