4NTY | pdb_00004nty

Cesium sites in the crystal structure of acid-sensing ion channel in complex with snake toxin

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
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: mpstruc
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d4ntyb_	Small proteins	BPTI-like	BPTI-like	automated matches	automated matches	Texas coral snake (Micrurus tener tener ) [TaxId: 1114302 ],	SCOPe (2.08)
C	d4ntyc_	All alpha proteins	Phospholipase A2, PLA2	Phospholipase A2, PLA2	automated matches	automated matches	Texas coral snake (Micrurus tener tener ) [TaxId: 1114302 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	ASICs transmembrane helices-like	8106434	3002854	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Proton-activated chloride channel, extracellular domain-like	8106423	3002853	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	BPTI-like	8070125	3000628	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Phospholipase A2, PLA2	8062779	3001690	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)
A	ASC	e4ntyA1	A: beta sandwiches	X: Amiloride-sensitive cation channel 2 (From Topology)	H: Amiloride-sensitive cation channel 2 (From Topology)	T: Amiloride-sensitive cation channel 2	F: ASC	ECOD (1.6)
B	Kunitz_BPTI	e4ntyB1	A: few secondary structure elements	X: BPTI-like (From Topology)	H: BPTI-like (From Topology)	T: BPTI-like	F: Kunitz_BPTI	ECOD (1.6)
C	Phospholip_A2_1	e4ntyC1	A: few secondary structure elements	X: Phospholipase A2, PLA2 (From Topology)	H: Phospholipase A2, PLA2 (From Topology)	T: Phospholipase A2, PLA2	F: Phospholip_A2_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.287.770	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	YojJ-like	CATH (4.3.0)
A	2.60.470.10	Mainly Beta	Sandwich	Acid-sensing ion channels like fold	Acid-sensing ion channels like domains	CATH (4.3.0)
A	1.10.3590.10	Mainly Alpha	Orthogonal Bundle	acid-sensing ion channel 1 fold	acid-sensing ion channel 1 domain	CATH (4.3.0)
A	1.10.287.820	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Acid-sensing ion channel domain	CATH (4.3.0)
B	4.10.410.10	Few Secondary Structures	Irregular	Factor Xa Inhibitor	Pancreatic trypsin inhibitor Kunitz domain	CATH (4.3.0)
C	1.20.90.10	Mainly Alpha	Up-down Bundle	Phospholipase A2	Phospholipase A2 domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF00014	Kunitz/Bovine pancreatic trypsin inhibitor domain (Kunitz_BPTI)	Kunitz/Bovine pancreatic trypsin inhibitor domain	Indicative of a protease inhibitor, usually a serine protease inhibitor. Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure. Certain family members are similar to the ...	Indicative of a protease inhibitor, usually a serine protease inhibitor. Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure. Certain family members are similar to the tick anticoagulant peptide (TAP, Swiss:P17726). This is a highly selective inhibitor of factor Xa in the blood coagulation pathways [1]. TAP molecules are highly dipolar [2], and are arranged to form a twisted two- stranded antiparallel beta-sheet followed by an alpha helix [1].	Domain
C	PF00068	Phospholipase A2 (Phospholip_A2_1)	Phospholipase A2	Phospholipase A2 releases fatty acids from the second carbon group of glycerol. Perhaps the best known members are secreted snake venoms, but also found in secreted pancreatic and membrane-associated forms. Structure is all-alpha, with two core disul ...	Phospholipase A2 releases fatty acids from the second carbon group of glycerol. Perhaps the best known members are secreted snake venoms, but also found in secreted pancreatic and membrane-associated forms. Structure is all-alpha, with two core disulfide-linked helices and a calcium-binding loop. This alignment represents the major family of PLA2s. A second minor family, defined by the honeybee venom PLA2 PDB:1POC and related sequences from Gila monsters (Heloderma), is not recognised. This minor family conserves the core helix pair but is substantially different elsewhere. The PROSITE pattern PA2_HIS, specific to the first core helix, recognises both families.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Acid-sensing ion channel 1	monoatomic cation transmembrane transporter activity gated channel activity monoatomic ion channel activity ligand-gated sodium channel activity sodium channel activity sodium ion transmembrane transporter activity ligand-gated channel activity ligand-gated monoatomic ion channel activity monoatomic cation channel activity passive transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity monoatomic cation transmembrane transporter activity gated channel activity monoatomic ion channel activity ligand-gated sodium channel activity sodium channel activity sodium ion transmembrane transporter activity ligand-gated channel activity ligand-gated monoatomic ion channel activity monoatomic cation channel activity passive transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity ligand-gated monoatomic cation channel activity transmembrane transporter activity pH-gated monoatomic ion channel activity identical protein binding protein binding binding	protein-containing complex organization protein trimerization cellular component organization cellular component biogenesis cellular component assembly protein homotrimerization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis cellular response to stimulus response to stimulus response to pH protein-containing complex organization protein trimerization cellular component organization cellular component biogenesis cellular component assembly protein homotrimerization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis cellular response to stimulus response to stimulus response to pH cellular response to pH response to abiotic stimulus cellular response to abiotic stimulus cellular response to environmental stimulus transport monoatomic ion transmembrane transport sodium ion transmembrane transport inorganic ion transmembrane transport establishment of localization metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport monoatomic cation transport sodium ion transport	cell periphery cellular anatomical structure plasma membrane membrane
B	Neurotoxin MitTx-alpha	enzyme regulator activity peptidase activity peptidase regulator activity catalytic activity, acting on a protein serine hydrolase activity serine-type endopeptidase inhibitor activity hydrolase activity enzyme inhibitor activity peptidase inhibitor activity endopeptidase regulator activity endopeptidase inhibitor activity molecular function inhibitor activity molecular function regulator activity serine-type peptidase activity serine-type endopeptidase activity enzyme regulator activity peptidase activity peptidase regulator activity catalytic activity, acting on a protein serine hydrolase activity serine-type endopeptidase inhibitor activity hydrolase activity enzyme inhibitor activity peptidase inhibitor activity endopeptidase regulator activity endopeptidase inhibitor activity molecular function inhibitor activity molecular function regulator activity serine-type peptidase activity serine-type endopeptidase activity catalytic activity endopeptidase activity passive transmembrane transporter activity channel regulator activity ion channel regulator activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transporter regulator activity transmembrane transporter activity toxin activity	-	cellular anatomical structure extracellular region
C	Basic phospholipase A2 homolog Tx-beta	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding passive transmembrane transporter activity channel regulator activity ion channel regulator activity monoatomic ion channel activity channel activity molecular function regulator activity monoatomic ion transmembrane transporter activity transporter activity cation binding ion binding binding calcium ion binding metal ion binding small molecule binding passive transmembrane transporter activity channel regulator activity ion channel regulator activity monoatomic ion channel activity channel activity molecular function regulator activity monoatomic ion transmembrane transporter activity transporter activity transporter regulator activity transmembrane transporter activity phospholipase A2 activity calcium-dependent phospholipase A2 activity hydrolase activity, acting on ester bonds carboxylic ester hydrolase activity hydrolase activity catalytic activity phospholipase activity lipase activity toxin activity phospholipid binding lipid binding	organic anion transport carboxylic acid transport secretion transport arachidonate transport lipid localization lipid transport establishment of localization organic acid transport localization arachidonate secretion monocarboxylic acid transport fatty acid transport icosanoid transport macromolecule localization organic anion transport carboxylic acid transport secretion transport arachidonate transport lipid localization lipid transport establishment of localization organic acid transport localization arachidonate secretion monocarboxylic acid transport fatty acid transport icosanoid transport macromolecule localization icosanoid secretion long-chain fatty acid transport lipid catabolic process catabolic process metabolic process cellular process primary metabolic process lipid metabolic process phospholipid metabolic process organophosphate metabolic process phosphate-containing compound metabolic process phosphorus metabolic process	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR004724	Epithelial sodium channel, chordates	Family
A	IPR001873	Epithelial sodium channel	Family
A	IPR020903	Epithelial sodium channel, conserved site	Conserved Site
B	IPR002223	Pancreatic trypsin inhibitor Kunitz domain	Domain
B	IPR036880	Pancreatic trypsin inhibitor Kunitz domain superfamily	Homologous Superfamily
C	IPR033112	Phospholipase A2, aspartic acid active site	Active Site
C	IPR001211	Phospholipase A2	Family
C	IPR036444	Phospholipase A2 domain superfamily	Homologous Superfamily
C	IPR016090	Phospholipase A2 domain	Domain

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Channels: Other Ion Channels	ASIC1 Acid-Sensing Ion Channel in complex with MitTx toxin

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	PCA	Parent Component: GLN RESID: AA0031 PSI-MOD : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420

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.