+
Open data
-
Basic information
Entry | Database: PDB / ID: 5d6l | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | beta2AR-T4L - CIM | |||||||||
![]() | Beta-2 adrenergic receptor,Endolysin,Beta-2 adrenergic receptor | |||||||||
![]() | MEMBRANE PROTEIN/HYDROLASE / ALPHA-HELICAL / G Protein-Coupled Receptors (GPCRs) / Beta-2 adrenergic receptor / membrane protein-hydrolase complex | |||||||||
Function / homology | ![]() beta2-adrenergic receptor activity / positive regulation of mini excitatory postsynaptic potential / positive regulation of cAMP-dependent protein kinase activity / positive regulation of AMPA receptor activity / norepinephrine binding / Adrenoceptors / heat generation / positive regulation of autophagosome maturation / norepinephrine-epinephrine-mediated vasodilation involved in regulation of systemic arterial blood pressure / activation of transmembrane receptor protein tyrosine kinase activity ...beta2-adrenergic receptor activity / positive regulation of mini excitatory postsynaptic potential / positive regulation of cAMP-dependent protein kinase activity / positive regulation of AMPA receptor activity / norepinephrine binding / Adrenoceptors / heat generation / positive regulation of autophagosome maturation / norepinephrine-epinephrine-mediated vasodilation involved in regulation of systemic arterial blood pressure / activation of transmembrane receptor protein tyrosine kinase activity / negative regulation of smooth muscle contraction / positive regulation of lipophagy / response to psychosocial stress / negative regulation of multicellular organism growth / negative regulation of G protein-coupled receptor signaling pathway / endosome to lysosome transport / adrenergic receptor signaling pathway / diet induced thermogenesis / neuronal dense core vesicle / positive regulation of protein kinase A signaling / adenylate cyclase binding / smooth muscle contraction / potassium channel regulator activity / bone resorption / positive regulation of bone mineralization / adenylate cyclase-activating adrenergic receptor signaling pathway / brown fat cell differentiation / regulation of sodium ion transport / viral release from host cell by cytolysis / response to cold / peptidoglycan catabolic process / receptor-mediated endocytosis / clathrin-coated endocytic vesicle membrane / positive regulation of protein serine/threonine kinase activity / adenylate cyclase-modulating G protein-coupled receptor signaling pathway / cellular response to amyloid-beta / cell wall macromolecule catabolic process / Cargo recognition for clathrin-mediated endocytosis / lysozyme / lysozyme activity / Clathrin-mediated endocytosis / positive regulation of cold-induced thermogenesis / amyloid-beta binding / G alpha (s) signalling events / host cell cytoplasm / transcription by RNA polymerase II / positive regulation of MAPK cascade / early endosome / cell surface receptor signaling pathway / receptor complex / lysosome / endosome membrane / Ub-specific processing proteases / endosome / defense response to bacterium / apical plasma membrane / protein-containing complex binding / Golgi apparatus / protein homodimerization activity / positive regulation of transcription by RNA polymerase II / identical protein binding / membrane / nucleus / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Ma, P. / Caffrey, M. | |||||||||
Funding support | ![]() ![]()
| |||||||||
![]() | ![]() Title: The cubicon method for concentrating membrane proteins in the cubic mesophase. Authors: Ma, P. / Weichert, D. / Aleksandrov, L.A. / Jensen, T.J. / Riordan, J.R. / Liu, X. / Kobilka, B.K. / Caffrey, M. | |||||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 112.8 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 81.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 5d6iC ![]() 5d6kC ![]() 5iyuC ![]() 2rh1S S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
-Protein / Sugars , 2 types, 2 molecules A
#1: Protein | Mass: 56601.438 Da / Num. of mol.: 1 Mutation: N187E, C54T, C97A,N187E, C54T, C97A,N187E, C54T, C97A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: ADRB2, ADRB2R, B2AR / Production host: ![]() ![]() |
---|---|
#2: Polysaccharide | alpha-D-glucopyranose-(1-4)-beta-D-glucopyranose / beta-maltose |
-Non-polymers , 7 types, 15 molecules ![](data/chem/img/SO4.gif)
![](data/chem/img/CAU.gif)
![](data/chem/img/BU1.gif)
![](data/chem/img/ACM.gif)
![](data/chem/img/CLR.gif)
![](data/chem/img/PLM.gif)
![](data/chem/img/12P.gif)
![](data/chem/img/CAU.gif)
![](data/chem/img/BU1.gif)
![](data/chem/img/ACM.gif)
![](data/chem/img/CLR.gif)
![](data/chem/img/PLM.gif)
![](data/chem/img/12P.gif)
#3: Chemical | ChemComp-SO4 / #4: Chemical | ChemComp-CAU / ( | #5: Chemical | #6: Chemical | ChemComp-ACM / | #7: Chemical | #8: Chemical | ChemComp-PLM / | #9: Chemical | ChemComp-12P / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 3.77 Å3/Da / Density % sol: 67.36 % |
---|---|
Crystal grow | Temperature: 293 K / Method: lipidic cubic phase Details: 30 - 35 % Peg 400, 5 -10 % butanediol, 0.1 - 0.35 mM Na sulphate, 0.1 M Bis-Tris pH 7.0. |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Mar 1, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.96867 Å / Relative weight: 1 |
Reflection | Resolution: 3.2→49.76 Å / Num. obs: 10858 / % possible obs: 94.4 % / Redundancy: 2.8 % / Rmerge(I) obs: 0.143 / Net I/σ(I): 1.5 |
Reflection shell | Resolution: 3.2→3.28 Å / Rmerge(I) obs: 0.814 / Mean I/σ(I) obs: 1.5 / % possible all: 96.7 |
-
Processing
Software |
| |||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 2RH1 Resolution: 3.2→49.76 Å / SU ML: 0.44 / Cross valid method: THROUGHOUT / σ(F): 1.35 / Phase error: 33.68 / Stereochemistry target values: ML
| |||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.2→49.76 Å
| |||||||||||||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||||||||||||
LS refinement shell |
|