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Yorodumi- PDB-7lie: The isolated chicken ASIC1a thumb domain (ATD-c1a) retains the st... -
+Open data
-Basic information
Entry | Database: PDB / ID: 7lie | ||||||
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Title | The isolated chicken ASIC1a thumb domain (ATD-c1a) retains the structure and ligand binding properties of the full length chicken ASIC1a | ||||||
Components | Acid-sensing ion channel 1 | ||||||
Keywords | MEMBRANE PROTEIN / ion channel domain / membrane protein domain / ASIC1a thumb domain | ||||||
Function / homology | Function and homology information pH-gated monoatomic ion channel activity / Stimuli-sensing channels / ligand-gated sodium channel activity / cellular response to pH / protein homotrimerization / sodium ion transmembrane transport / identical protein binding / plasma membrane Similarity search - Function | ||||||
Biological species | Gallus gallus (chicken) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Mishra, B.M. / Mobli, M. | ||||||
Funding support | Australia, 1items
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Citation | Journal: To Be Published Title: A reductionist approach for studying the ASIC thumb domain to screen for channel modulators as novel therapeutic leads Authors: Mishra, B.M. / Mobli, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7lie.cif.gz | 521.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7lie.ent.gz | 449.5 KB | Display | PDB format |
PDBx/mmJSON format | 7lie.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/li/7lie ftp://data.pdbj.org/pub/pdb/validation_reports/li/7lie | HTTPS FTP |
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-Related structure data
Similar structure data | Similarity search - Function & homologyF&H Search |
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Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 8921.990 Da / Num. of mol.: 1 / Fragment: Thumb domain, residues 291-367 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Gallus gallus (chicken) / Gene: ASIC1, ACCN2 / Production host: Escherichia coli (E. coli) / References: UniProt: Q1XA76 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 320 uM [U-100% 13C; U-100% 15N] Thumb domain of the chicken acid-sensing ion channel 1a (cASIC1a), 95% H2O/5% D2O Details: The freeze-dried ATD-c1a powder was dissolved in 300 uL of 50 mM Bis-Tris buffer pH 7.0 containing 5% D2O, 3 mM sodium azide and 1 mM EDTA. The final concentration of ATD-c1a in solution was 320 uM. Label: 13C/15N_ATD-c1a / Solvent system: 95% H2O/5% D2O |
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Sample | Conc.: 320 uM Component: Thumb domain of the chicken acid-sensing ion channel 1a (cASIC1a) Isotopic labeling: [U-100% 13C; U-100% 15N] |
Sample conditions | Details: Sample was kept at room temperature and pressure / Ionic strength: 50 mM Bis-Tris pH 7.0 mM / Ionic strength err: 0.2 / Label: ATD-c1a / pH: 7 / PH err: 0.05 / Pressure: 1 atm / Pressure err: 0.01 / Temperature: 298 K / Temperature err: 0.2 |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 900 MHz Details: The instrument is fitted with a triple-resonance TCI cryoprobe |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 6 / Details: using automated NOE assignments | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: target function | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: target function / Conformers calculated total number: 20 / Conformers submitted total number: 20 |