2BEX | pdb_00002bex

Crystal structure of Placental Ribonuclease Inhibitor in complex with Human Eosinophil Derived Neurotoxin at 2A 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)
C	d2bexc2	Alpha and beta proteins (a+b)	RNase A-like	RNase A-like	Ribonuclease A-like	Eosinophil-derived neurotoxin (EDN)	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d2bexc3	Artifacts	Tags	Tags	Tags	N-terminal Tags	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d2bexd2	Alpha and beta proteins (a+b)	RNase A-like	RNase A-like	Ribonuclease A-like	Eosinophil-derived neurotoxin (EDN)	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d2bexd3	Artifacts	Tags	Tags	Tags	N-terminal Tags	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2bexb_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	RNI-like	28-residue LRR	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2bexa_	Alpha and beta proteins (a/b)	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	RNI-like	28-residue LRR	automated matches	(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)
C	SCOP2B Superfamily	RNase A-like	8038842	3001918	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RNase A-like	8038842	3001918	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RNI-like	8035352	3000990	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RNI-like	8035352	3000990	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	RnaseA	e2bexC1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: RnaseA	ECOD (develop294)
D	RnaseA	e2bexD1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: RnaseA	ECOD (develop294)
B	LRR_6,LRR_RI_capping	e2bexB1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: LRR_6,LRR_RI_capping	ECOD (develop294)
A	LRR_6,LRR_RI_capping	e2bexA1	A: alpha bundles	X: EGF-like	H: LDL receptor-like module	T: LDL receptor-like module	F: LRR_6,LRR_RI_capping	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.10.130.10	Alpha Beta	Roll	P-30 Protein	Ribonuclease A-like domain	CATH (4.3.0)
D	3.10.130.10	Alpha Beta	Roll	P-30 Protein	Ribonuclease A-like domain	CATH (4.3.0)
B	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)
A	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D	PF00074	Pancreatic ribonuclease (RnaseA)	Pancreatic ribonuclease	Ribonucleases. Members include pancreatic RNAase A and angiogenins. Structure is an alpha+beta fold -- long curved beta sheet and three helices.	Domain
A, B	PF13516	Leucine Rich repeat (LRR_6)	Leucine Rich repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	NONSECRETORY RIBONUCLEASE	phosphorus-oxygen lyase activity endonuclease activity nuclease activity ribonuclease A activity catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity lyase activity catalytic activity binding nucleic acid binding hydrolase activity	catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process RNA catabolic process chemotaxis response to stimulus catabolic process RNA metabolic process primary metabolic process nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process nucleic acid catabolic process metabolic process cellular process macromolecule metabolic process RNA catabolic process chemotaxis response to stimulus taxis response to chemical response to external stimulus locomotion biological process involved in interspecies interaction between organisms innate immune response in mucosa immune response response to other organism defense response defense response to symbiont response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus mucosal immune response organ or tissue specific immune response defense response to virus response to virus	cellular anatomical structure extracellular region extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure lytic vacuole intracellular vesicle membrane-enclosed lumen cellular anatomical structure extracellular region extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure lytic vacuole intracellular vesicle membrane-enclosed lumen cytoplasmic vesicle lumen vacuolar lumen endomembrane system intracellular organelle lumen intracellular organelle cytoplasmic vesicle lysosome vesicle lumen azurophil granule vacuole intracellular membrane-bounded organelle secretory granule lumen azurophil granule lumen organelle lumen secretory granule primary lysosome secretory vesicle cytoplasm
A, B	RIBONUCLEASE INHIBITOR	enzyme regulator activity molecular function inhibitor activity molecular function regulator activity nuclease inhibitor activity enzyme inhibitor activity ribonuclease inhibitor activity	developmental process multicellular organismal process regulation of multicellular organismal development regulation of biological process regulation of developmental process blood vessel morphogenesis tube development biological regulation angiogenesis vasculature development regulation of vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis developmental process multicellular organismal process regulation of multicellular organismal development regulation of biological process regulation of developmental process blood vessel morphogenesis tube development biological regulation angiogenesis vasculature development regulation of vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis regulation of angiogenesis anatomical structure formation involved in morphogenesis anatomical structure development regulation of multicellular organismal process regulation of anatomical structure morphogenesis blood vessel development system development regulation of cellular process catabolic process negative regulation of biological process RNA metabolic process macromolecule catabolic process nucleobase-containing compound metabolic process negative regulation of cellular process RNA catabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process mRNA catabolic process negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process mRNA metabolic process nucleic acid metabolic process nucleobase-containing compound catabolic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process nucleic acid catabolic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process regulation of Arp2/3 complex-mediated actin nucleation regulation of cytoskeleton organization regulation of cellular component organization regulation of actin filament-based process cellular component organization regulation of actin nucleation actin filament-based process cellular component organization or biogenesis regulation of actin filament organization actin cytoskeleton organization actin filament organization Arp2/3 complex-mediated actin nucleation regulation of organelle organization organelle organization regulation of actin cytoskeleton organization regulation of supramolecular fiber organization actin nucleation supramolecular fiber organization cytoskeleton organization cell migration cell motility negative regulation of tRNA metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality tRNA decay tRNA metabolic process tRNA stabilization regulation of tRNA metabolic process negative regulation of RNA metabolic process negative regulation of tRNA catabolic process regulation of tRNA stability negative regulation of catabolic process negative regulation of RNA catabolic process regulation of catabolic process RNA stabilization regulation of tRNA catabolic process regulation of RNA stability	cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell projection cellular anatomical structure cell leading edge plasma membrane bounded cell projection lamellipodium extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle protein-containing complex angiogenin-PRI complex intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR036816	Ribonuclease A-like domain superfamily	Homologous Superfamily
C, D	IPR001427	Pancreatic ribonuclease	Family
C, D	IPR023411	Ribonuclease A, active site	Active Site
C, D	IPR023412	Ribonuclease A-domain	Domain
A, B	IPR001611	Leucine-rich repeat	Repeat
A, B	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, B	IPR041302	Ribonuclease inhibitor, leucine rich repeat cap	Repeat
A, B	IPR050637	NLRP family, innate immunity and inflammation regulators	Family
A, B	IPR006553	Leucine-rich repeat, cysteine-containing subtype	Repeat

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D	Pharos: P10153	asthma glioblastoma interstitial cystitis malignant ependymoma osteosarcoma tuberculosis gastric cancer hypereosinophilic syndrome lymphoplasmacytic lymphoma malignant glioma pilocytic astrocytoma gastric carcinoma IgA glomerulonephritis malignant colon neoplasm medulloblastoma asthma glioblastoma interstitial cystitis malignant ependymoma osteosarcoma tuberculosis gastric cancer hypereosinophilic syndrome lymphoplasmacytic lymphoma malignant glioma pilocytic astrocytoma gastric carcinoma IgA glomerulonephritis malignant colon neoplasm medulloblastoma psoriasis
A, B	Pharos: P13489	diabetes mellitus ovarian cancer lung cancer psoriasis malignant mesothelioma systemic lupus erythematosus

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.