6YPE | pdb_00006ype

Crystal structure of the human neuronal pentraxin 1 (NP1) pentraxin (PTX) domain.

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
B	d6ypeb_	All beta proteins	Concanavalin A-like lectins/glucanases	Concanavalin A-like lectins/glucanases	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d6ypea_	All beta proteins	Concanavalin A-like lectins/glucanases	Concanavalin A-like lectins/glucanases	automated matches	automated matches	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)
B	SCOP2B Superfamily	Concanavalin A-like lectins/glucanases	8099186	3000120	SCOP2B (2022-06-29)
A	SCOP2 Family	Pentraxin (pentaxin)	8099185	4002704	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Concanavalin A-like lectins/glucanases	8099186	3000120	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)
B	Pentaxin	e6ypeB1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: Pentaxin	ECOD (1.6)
A	Pentaxin	e6ypeA1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Concanavalin A-like lectins/glucanases	F: Pentaxin	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00354	Pentaxin family (Pentaxin)	Pentaxin family	Pentaxins are also known as pentraxins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Neuronal pentraxin-1	cation binding ion binding binding metal ion binding small molecule binding	cellular component organization organelle organization mitochondrial fragmentation involved in apoptotic process apoptotic mitochondrial changes cellular process apoptotic process cellular component organization or biogenesis cell death programmed cell death mitochondrion organization protein localization to postsynaptic specialization membrane protein localization to postsynaptic membrane protein localization to cell periphery cellular localization cellular component organization organelle organization mitochondrial fragmentation involved in apoptotic process apoptotic mitochondrial changes cellular process apoptotic process cellular component organization or biogenesis cell death programmed cell death mitochondrion organization protein localization to postsynaptic specialization membrane protein localization to postsynaptic membrane protein localization to cell periphery cellular localization protein localization to synapse biological regulation localization within membrane protein localization to membrane protein-containing complex localization neurotransmitter receptor localization to postsynaptic specialization membrane localization regulation of postsynaptic membrane neurotransmitter receptor levels macromolecule localization protein localization to organelle protein localization to postsynapse intracellular protein localization regulation of biological quality protein localization to cell junction receptor localization to synapse developmental process multicellular organism development multicellular organismal process central nervous system development anatomical structure development nervous system development system development trans-synaptic signaling synaptic signaling regulation of biological process signaling anterograde trans-synaptic signaling cell-cell signaling chemical synaptic transmission cell communication cellular response to stimulus response to stimulus homeostatic process response to oxygen-containing compound cellular response to glucose stimulus intracellular glucose homeostasis cellular response to oxygen-containing compound response to hexose cellular response to carbohydrate stimulus cellular response to chemical stimulus cellular homeostasis response to monosaccharide response to carbohydrate chemical homeostasis response to glucose response to chemical glucose homeostasis carbohydrate homeostasis cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus cellular response to metal ion response to metal ion response to potassium ion cellular response to potassium ion transport establishment of localization in cell intracellular transport establishment of localization mitochondrial transport cellular component biogenesis cellular component assembly cell junction assembly postsynaptic density organization synapse organization postsynapse organization organelle assembly postsynaptic specialization assembly postsynapse assembly excitatory synapse assembly cell junction organization postsynaptic specialization organization synapse assembly postsynaptic density assembly axonogenesis cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis innervation cell development neuron projection development cell morphogenesis neurogenesis cell projection morphogenesis nerve development neuron differentiation neuron projection morphogenesis cell differentiation plasma membrane bounded cell projection organization axon development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron development axonogenesis involved in innervation	cellular anatomical structure synaptic cleft extracellular region membrane-bounded organelle intracellular anatomical structure transport vesicle intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle cellular anatomical structure synaptic cleft extracellular region membrane-bounded organelle intracellular anatomical structure transport vesicle intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle synapse cell junction glutamatergic synapse endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR030476	Pentaxin, conserved site	Conserved Site
A, B	IPR051360	Neuronal Pentraxin and Related	Family
A, B	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A, B	IPR001759	Pentraxin domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q15818	astrocytic tumor hypertensive disorder lung carcinoma malignant glioma oligodendroglioma pituitary cancer subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor large cell medulloblastoma malignant colon neoplasm malignant mesothelioma ovarian cancer primitive neuroectodermal tumor glioblastoma lung adenocarcinoma astrocytic tumor hypertensive disorder lung carcinoma malignant glioma oligodendroglioma pituitary cancer subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor large cell medulloblastoma malignant colon neoplasm malignant mesothelioma ovarian cancer primitive neuroectodermal tumor glioblastoma lung adenocarcinoma malignant ependymoma medulloblastoma pilocytic astrocytoma psoriasis

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.