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- PDB-4rcr: STRUCTURE OF THE REACTION CENTER FROM RHODOBACTER SPHAEROIDES R-2... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4rcr | ||||||
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Title | STRUCTURE OF THE REACTION CENTER FROM RHODOBACTER SPHAEROIDES R-26 AND 2.4.1: PROTEIN-COFACTOR (BACTERIOCHLOROPHYLL, BACTERIOPHEOPHYTIN, AND CAROTENOID) INTERACTIONS | ||||||
![]() | (PHOTOSYNTHETIC REACTION ...) x 3 | ||||||
![]() | PHOTOSYNTHETIC REACTION CENTER | ||||||
Function / homology | ![]() : / plasma membrane-derived chromatophore membrane / plasma membrane light-harvesting complex / bacteriochlorophyll binding / photosynthesis, light reaction / electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity / photosynthetic electron transport in photosystem II / membrane => GO:0016020 / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Komiya, H. / Yeates, T.O. / Chirino, A.J. / Rees, D.C. / Allen, J.P. / Feher, G. | ||||||
![]() | ![]() Title: Structure of the reaction center from Rhodobacter sphaeroides R-26 and 2.4.1: protein-cofactor (bacteriochlorophyll, bacteriopheophytin, and carotenoid) interactions. Authors: Yeates, T.O. / Komiya, H. / Chirino, A. / Rees, D.C. / Allen, J.P. / Feher, G. #1: ![]() Title: Structure and Function of Bacterial Photosynthetic Reaction Centres Authors: Feher, G. / Allen, J.P. / Okamura, M.Y. / Rees, D.C. #2: ![]() Title: The Bacterial Photosynthetic Reaction Center as a Model for Membrane Proteins Authors: Rees, D.C. / Komiya, H. / Yeates, T.O. / Allen, J.P. / Feher, G. #3: ![]() Title: Structure of the Reaction Center from Rhodobacter Sphaeroides R-26 and 2.4.1: Symmetry Relations and Sequence Comparisons between Different Species Authors: Komiya, H. / Yeates, T.O. / Rees, D.C. / Allen, J.P. / Feher, G. #4: ![]() Title: Structure of the Reaction Center from Rhodobacter Sphaeroides R-26: Protein-Cofactor (Quinones and Fe2+) Interactions Authors: Allen, J.P. / Feher, G. / Yeates, T.O. / Komiya, H. / Rees, D.C. #5: ![]() Title: Structure of the Reaction Center from Rhodobacter Sphaeroides R-26: The Protein Subunits Authors: Allen, J.P. / Feher, G. / Yeates, T.O. / Komiya, H. / Rees, D.C. #6: ![]() Title: Structure of the Reaction Center from Rhodobacter Sphaeroides R-26: The Cofactors Authors: Allen, J.P. / Feher, G. / Yeates, T.O. / Komiya, H. / Rees, D.C. #7: ![]() Title: Structure of the Reaction Center from Rhodobacter Sphaeroides R-26: Membrane-Protein Interactions Authors: Yeates, T.O. / Komiya, H. / Rees, D.C. / Allen, J.P. / Feher, G. #8: ![]() Title: Structural Homology of Reaction Centers from Rhodopseudomonas Sphaeroides and Rhodopseudomonas Viridis as Determined by X-Ray Diffraction Authors: Allen, J.P. / Feher, G. / Yeates, T.O. / Rees, D.C. / Deisenhofer, J. / Michel, H. / Huber, R. #9: ![]() Title: Crystallization of Reaction Center from Rhodopseudomonas Sphaeroides: Preliminary Characterization Authors: Allen, J.P. / Feher, G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 180.2 KB | Display | ![]() |
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PDB format | ![]() | 142.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 853.8 KB | Display | ![]() |
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Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 67.3 KB | Display | |
Data in CIF | ![]() | 87.4 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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Atom site foot note | 1: RESIDUES PRO M 49 AND PRO M 99 ARE CIS PROLINES. |
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Components
-PHOTOSYNTHETIC REACTION ... , 3 types, 3 molecules LMH
#1: Protein | Mass: 31346.389 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() |
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#2: Protein | Mass: 34398.543 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() |
#3: Protein | Mass: 28066.322 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() |
-Sugars , 1 types, 1 molecules ![](data/chem/img/BOG.gif)
#7: Sugar | ChemComp-BOG / |
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-Non-polymers , 4 types, 9 molecules ![](data/chem/img/BCL.gif)
![](data/chem/img/BPH.gif)
![](data/chem/img/U10.gif)
![](data/chem/img/FE.gif)
![](data/chem/img/BPH.gif)
![](data/chem/img/U10.gif)
![](data/chem/img/FE.gif)
#4: Chemical | ChemComp-BCL / #5: Chemical | #6: Chemical | #8: Chemical | ChemComp-FE / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.04 Å3/Da / Density % sol: 69.55 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 8 / Method: vapor diffusionDetails: taken from Allen, J.P. et al (1986). Proc. Natl. Acad. Sci., 83, 8589-8593. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Reflection | *PLUS Highest resolution: 3 Å / Lowest resolution: 8 Å / Num. obs: 23025 / % possible obs: 74 % / Num. measured all: 73313 / Rmerge(I) obs: 0.14 |
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Processing
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Refinement | Resolution: 2.8→8 Å Details: THE STRUCTURE OF H-CHAIN IS BASED MAINLY ON MOLECULAR REPLACEMENT FROM THE (RHODOPSEUDOMONAS) VIRIDIS REACTION CENTER AND IS LESS RELIABLE THAN THE REST OF THE STRUCTURE. IN GENERAL, THE ...Details: THE STRUCTURE OF H-CHAIN IS BASED MAINLY ON MOLECULAR REPLACEMENT FROM THE (RHODOPSEUDOMONAS) VIRIDIS REACTION CENTER AND IS LESS RELIABLE THAN THE REST OF THE STRUCTURE. IN GENERAL, THE TRANSMEMBRANE REGION OF THE STRUCTURE IS MORE RELIABLE THAN THE HYDROPHILIC REGIONS OF THE MOLECULE.
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Refinement step | Cycle: LAST / Resolution: 2.8→8 Å
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Refinement | *PLUS Highest resolution: 3 Å / Lowest resolution: 8 Å / Num. reflection obs: 21992 / Rfactor obs: 0.263 / Rfactor Rwork: 0.263 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS | ||||||||||||
Refine LS restraints | *PLUS
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