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Yorodumi- PDB-2l7s: Determination of the three-dimensional structure of adrenomedulli... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2l7s | ||||||
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Title | Determination of the three-dimensional structure of adrenomedullin, a first step towards the analysis of its interactions with receptors and small molecules | ||||||
Components | Adrenomedullin | ||||||
Keywords | HORMONE / pre-pro-adrenomedullin | ||||||
Function / homology | Function and homology information adrenomedullin receptor binding / positive regulation of progesterone biosynthetic process / vascular associated smooth muscle cell development / neuron projection regeneration / adrenomedullin receptor signaling pathway / spongiotrophoblast layer development / Calcitonin-like ligand receptors / branching involved in labyrinthine layer morphogenesis / positive regulation of vasculogenesis / regulation of systemic arterial blood pressure ...adrenomedullin receptor binding / positive regulation of progesterone biosynthetic process / vascular associated smooth muscle cell development / neuron projection regeneration / adrenomedullin receptor signaling pathway / spongiotrophoblast layer development / Calcitonin-like ligand receptors / branching involved in labyrinthine layer morphogenesis / positive regulation of vasculogenesis / regulation of systemic arterial blood pressure / regulation of the force of heart contraction / G protein-coupled receptor internalization / regulation of urine volume / negative regulation of vascular permeability / negative regulation of vasoconstriction / positive regulation of heart rate / response to starvation / odontogenesis of dentin-containing tooth / cAMP-mediated signaling / androgen metabolic process / developmental growth / vasculogenesis / animal organ regeneration / response to glucocorticoid / neural tube closure / female pregnancy / response to insulin / adenylate cyclase-activating G protein-coupled receptor signaling pathway / hormone activity / receptor internalization / positive regulation of angiogenesis / heart development / positive regulation of cytosolic calcium ion concentration / G alpha (s) signalling events / cell population proliferation / response to lipopolysaccharide / response to hypoxia / inflammatory response / positive regulation of apoptotic process / negative regulation of cell population proliferation / signaling receptor binding / positive regulation of cell population proliferation / signal transduction / extracellular space / extracellular region / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing, molecular dynamics | ||||||
Model details | lowest energy, model 1 | ||||||
Authors | Jimenez-Barbero, J. / Perez-Castells, J. / Nieto, L. | ||||||
Citation | Journal: Biopolymers / Year: 2012 Title: Structure of micelle-bound adrenomedullin: a first step toward the analysis of its interactions with receptors and small molecules. Authors: Perez-Castells, J. / Martin-Santamaria, S. / Nieto, L. / Ramos, A. / Martinez, A. / Pascual-Teresa, B. / Jimenez-Barbero, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2l7s.cif.gz | 347.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2l7s.ent.gz | 294.5 KB | Display | PDB format |
PDBx/mmJSON format | 2l7s.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/l7/2l7s ftp://data.pdbj.org/pub/pdb/validation_reports/l7/2l7s | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 6038.813 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: ADM, AM / References: UniProt: P35318 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.33 mM AM, 20 mM sodium phosphate, 23 mM [U-2H] SDS, 90 % H2O, 10 % [U-99% 2H] D2O, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0 / pH: 7.5 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 800 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing, molecular dynamics / Software ordinal: 1 / Details: Energy minimization | ||||||||||||||||||||
NMR constraints | NOE constraints total: 2338 / NOE intraresidue total count: 957 / NOE long range total count: 27 / NOE medium range total count: 235 / NOE sequential total count: 695 | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |