+Open data
-Basic information
Entry | Database: PDB / ID: 1a0r | ||||||
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Title | HETEROTRIMERIC COMPLEX OF PHOSDUCIN/TRANSDUCIN BETA-GAMMA | ||||||
Components |
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Keywords | COMPLEX (TRANSDUCER/TRANSDUCTION) / PHOSDUCIN / TRANSDUCIN / BETA-GAMMA / SIGNAL TRANSDUCTION / REGULATION / PHOSPHORYLATION / G PROTEINS / THIOREDOXIN / VISION / MEKA / COMPLEX (TRANSDUCER-TRANSDUCTION) / POST-TRANSLATIONAL MODIFICATION / FARNESYL / FARNESYLATION / COMPLEX (TRANSDUCER-TRANSDUCTION) complex | ||||||
Function / homology | Function and homology information Olfactory Signaling Pathway / Sensory perception of sweet, bitter, and umami (glutamate) taste / Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) / eye photoreceptor cell development / Inactivation, recovery and regulation of the phototransduction cascade / Activation of the phototransduction cascade / Activation of G protein gated Potassium channels / G-protein activation / G beta:gamma signalling through PI3Kgamma / Prostacyclin signalling through prostacyclin receptor ...Olfactory Signaling Pathway / Sensory perception of sweet, bitter, and umami (glutamate) taste / Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) / eye photoreceptor cell development / Inactivation, recovery and regulation of the phototransduction cascade / Activation of the phototransduction cascade / Activation of G protein gated Potassium channels / G-protein activation / G beta:gamma signalling through PI3Kgamma / Prostacyclin signalling through prostacyclin receptor / Adrenaline,noradrenaline inhibits insulin secretion / G beta:gamma signalling through PLC beta / ADP signalling through P2Y purinoceptor 1 / Thromboxane signalling through TP receptor / Presynaptic function of Kainate receptors / G beta:gamma signalling through CDC42 / Inhibition of voltage gated Ca2+ channels via Gbeta/gamma subunits / Glucagon-type ligand receptors / G alpha (12/13) signalling events / G beta:gamma signalling through BTK / ADP signalling through P2Y purinoceptor 12 / response to stimulus / Cooperation of PDCL (PhLP1) and TRiC/CCT in G-protein beta folding / Thrombin signalling through proteinase activated receptors (PARs) / Ca2+ pathway / Extra-nuclear estrogen signaling / G alpha (z) signalling events / G alpha (s) signalling events / G alpha (q) signalling events / G alpha (i) signalling events / Glucagon-like Peptide-1 (GLP1) regulates insulin secretion / Vasopressin regulates renal water homeostasis via Aquaporins / phototransduction / photoreceptor outer segment / visual perception / photoreceptor inner segment / protein localization / photoreceptor disc membrane / cellular response to catecholamine stimulus / adenylate cyclase-activating dopamine receptor signaling pathway / cellular response to prostaglandin E stimulus / sensory perception of taste / G-protein beta-subunit binding / heterotrimeric G-protein complex / signaling receptor complex adaptor activity / retina development in camera-type eye / GTPase binding / phospholipase C-activating G protein-coupled receptor signaling pathway / cell population proliferation / G protein-coupled receptor signaling pathway / GTPase activity / protein-containing complex binding / membrane / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Bos taurus (cattle) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / molecular replacement, CROSS-CRYSTAL A / Resolution: 2.8 Å | ||||||
Authors | Loew, A. / Ho, Y.-K. / Blundell, T.L. / Bax, B. | ||||||
Citation | Journal: Structure / Year: 1998 Title: Phosducin induces a structural change in transducin beta gamma. Authors: Loew, A. / Ho, Y.K. / Blundell, T. / Bax, B. #1: Journal: Cell(Cambridge,Mass.) / Year: 1996 Title: Crystal Structure at 2.4 Angstroms Resolution of the Complex of Transducin Betagamma and its Regulator, Phosducin Authors: Gaudet, R. / Bohm, A. / Sigler, P.B. #2: Journal: Cell(Cambridge,Mass.) / Year: 1995 Title: The Structure of the G Protein Heterotrimer Gi Alpha 1 Beta 1 Gamma 2 Authors: Wall, M.A. / Coleman, D.E. / Lee, E. / Iniguez-Lluhi, J.A. / Posner, B.A. / Gilman, A.G. / Sprang, S.R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1a0r.cif.gz | 124 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1a0r.ent.gz | 98.6 KB | Display | PDB format |
PDBx/mmJSON format | 1a0r.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a0/1a0r ftp://data.pdbj.org/pub/pdb/validation_reports/a0/1a0r | HTTPS FTP |
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-Related structure data
Related structure data | 1gp2S S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 37325.797 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: PURIFIED FROM BOVINE ROD OUTER SEGMENT / Source: (natural) Bos taurus (cattle) / Cellular location: ROD OUTER SEGMENTS / Organ: EYE / Tissue: RETINA / References: UniProt: P04901, UniProt: P62871*PLUS |
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#2: Protein | Mass: 7666.770 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: PURIFIED FROM BOVINE ROD OUTER SEGMENT / Source: (natural) Bos taurus (cattle) / Cellular location: ROD OUTER SEGMENTS / Organ: EYE / Tissue: RETINA / References: UniProt: P02698 |
#3: Protein | Mass: 28268.758 Da / Num. of mol.: 1 / Source method: isolated from a natural source Details: PURIFIED FROM BOVINE ROD OUTER SEGMENT IN COMPLEX WITH TRANSDUCIN BETA-GAMMA SUBUNIT Source: (natural) Bos taurus (cattle) / Cellular location: ROD OUTER SEGMENTS / Organ: EYE / Tissue: RETINA / References: UniProt: P19632 |
#4: Chemical | ChemComp-FAR / |
#5: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.25 Å3/Da / Density % sol: 45 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: microbatch / pH: 6.8 Details: THE PROTEIN COMPLEX (10 MG/ML SOLUTION) WAS CRYSTALLIZED FROM 400 MM SODIUM CACODYLATE (PH 6.8), 1 MM ZINC CHLORIDE, 25 % ETHYLENE GLYCOL, 12 % PEG 8000, BY MICROBATCH CRYSTALLIZATION AT 4 ...Details: THE PROTEIN COMPLEX (10 MG/ML SOLUTION) WAS CRYSTALLIZED FROM 400 MM SODIUM CACODYLATE (PH 6.8), 1 MM ZINC CHLORIDE, 25 % ETHYLENE GLYCOL, 12 % PEG 8000, BY MICROBATCH CRYSTALLIZATION AT 4 DEGREES C., microbatch, temperature 277K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / Method: batch method | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: BM02 / Wavelength: 0.9194 |
Detector | Detector: CCD / Date: Apr 1, 1996 / Details: MIRRORS |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9194 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→20 Å / Num. obs: 15784 / % possible obs: 93.2 % / Observed criterion σ(I): 0 / Redundancy: 3.09 % / Biso Wilson estimate: 31.6 Å2 / Rsym value: 0.08 |
Reflection shell | Resolution: 2.8→2.9 Å / Rsym value: 0.315 / % possible all: 97.8 |
Reflection | *PLUS Rmerge(I) obs: 0.08 |
Reflection shell | *PLUS % possible obs: 97.8 % / Rmerge(I) obs: 0.315 |
-Processing
Software |
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Refinement | Method to determine structure: molecular replacement, CROSS-CRYSTAL A Starting model: BETA-GAMMA CHAIN OF 1GP2 Resolution: 2.8→20 Å / Rfactor Rfree error: 0.009 / Data cutoff high absF: 10000000 / Data cutoff low absF: 0.001 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 2 / Details: BULK SOLVENT MODEL USED
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Displacement parameters | Biso mean: 31.2 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.8→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.8→2.93 Å / Rfactor Rfree error: 0.047 / Total num. of bins used: 8
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Xplor file |
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Software | *PLUS Name: X-PLOR / Version: 3.851 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.222 / Rfactor Rfree: 0.261 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor obs: 0.296 |