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- PDB-1g7k: CRYSTAL STRUCTURE OF DSRED, A RED FLUORESCENT PROTEIN FROM DISCOS... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1g7k | |||||||||
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Title | CRYSTAL STRUCTURE OF DSRED, A RED FLUORESCENT PROTEIN FROM DISCOSOMA SP. RED | |||||||||
![]() | FLUORESCENT PROTEIN FP583 | |||||||||
![]() | LUMINESCENT PROTEIN / Fluorescent Protein / GFP / Coral / Red / Beta Barrel / Chromophore / dsred / drFP583 | |||||||||
Function / homology | ![]() | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Yarbrough, D. / Wachter, R.M. / Kallio, K. / Matz, M.V. / Remington, S.J. | |||||||||
![]() | ![]() Title: Refined crystal structure of DsRed, a red fluorescent protein from coral, at 2.0-A resolution. Authors: Yarbrough, D. / Wachter, R.M. / Kallio, K. / Matz, M.V. / Remington, S.J. #1: ![]() Title: Fluorescent Proteins from Nonbioluminescent Anthozoa Species Authors: Matz, M.V. / Fradkov, A.F. / Labas, Y.A. / Savitsky, A.P. / Zaraisky, A.G. / Markelov, M.L. / Lukyanov, S.A. #2: ![]() Title: The Structure of the Chromophore within DsRed, a Red Fluorescent Protein from Coral Authors: Gross, L.A. / Baird, G.S. / Hoffman, R.C. / Baldridge, K.K. / Tsien, R.Y. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 197.1 KB | Display | ![]() |
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PDB format | ![]() | 158.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 455.2 KB | Display | ![]() |
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Full document | ![]() | 495.7 KB | Display | |
Data in XML | ![]() | 42.1 KB | Display | |
Data in CIF | ![]() | 58 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Details | the full biological assembly is the homotetramer in the asymmetric unit |
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Components
#1: Protein | Mass: 27551.205 Da / Num. of mol.: 4 / Mutation: RESIDUES 66-68 REPLACED BY CRO Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Water | ChemComp-HOH / | Sequence details | RESIDUES GLN 66, TYR 67, GLY 68 ARE MODIFIED TO MAKE THE CHROMOPHOR | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.02 Å3/Da / Density % sol: 39.24 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.8 Details: PEG 4000, Tris, Beta-Mercaptoethanol, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.9 / Details: used microseeding | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Apr 21, 1999 / Details: mirrors | ||||||||||||
Radiation | Monochromator: Double-Crystal Si 111 crystals / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2→24.1 Å / Num. all: 56056 / Num. obs: 56056 / % possible obs: 94.8 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 4.1 % / Biso Wilson estimate: 10.2 Å2 / Rmerge(I) obs: 0.026 / Net I/σ(I): 18.6 | ||||||||||||
Reflection shell | Resolution: 2→2.1 Å / Redundancy: 4.1 % / Rmerge(I) obs: 0.043 / % possible all: 95.1 | ||||||||||||
Reflection | *PLUS Highest resolution: 2 Å / Lowest resolution: 25.1 Å / Num. obs: 56118 / Num. measured all: 232348 / Rmerge(I) obs: 0.027 | ||||||||||||
Reflection shell | *PLUS Lowest resolution: 2.11 Å / Rmerge(I) obs: 0.044 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 2→30 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | |||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2 Å / Lowest resolution: 25.1 Å / σ(F): 0 / Rfactor obs: 0.162 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS |