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1nkz

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[[Image:1nkz.gif|left|200px]]
 
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{{Structure
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==Crystal structure of LH2 B800-850 from Rps. acidophila at 2.0 Angstrom resolution==
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|PDB= 1nkz |SIZE=350|CAPTION= <scene name='initialview01'>1nkz</scene>, resolution 2.00&Aring;
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<StructureSection load='1nkz' size='340' side='right'caption='[[1nkz]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=RG1:RHODOPIN+GLUCOSIDE'>RG1</scene>, <scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene> and <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>
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<table><tr><td colspan='2'>[[1nkz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodoblastus_acidophilus Rhodoblastus acidophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NKZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NKZ FirstGlance]. <br>
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|ACTIVITY=
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2&#8491;</td></tr>
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|GENE=
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=BOG:B-OCTYLGLUCOSIDE'>BOG</scene>, <scene name='pdbligand=CXM:N-CARBOXYMETHIONINE'>CXM</scene>, <scene name='pdbligand=RG1:RHODOPIN+B-D-GLUCOSIDE'>RG1</scene></td></tr>
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}}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1nkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nkz OCA], [https://pdbe.org/1nkz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nkz RCSB], [https://www.ebi.ac.uk/pdbsum/1nkz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nkz ProSAT]</span></td></tr>
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</table>
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'''Crystal structure of LH2 B800-850 from Rps. acidophila at 2.0 Angstrom resolution'''
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== Function ==
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[https://www.uniprot.org/uniprot/LHA4_RHOAC LHA4_RHOAC] Antenna complexes are light-harvesting systems, which transfer the excitation energy to the reaction centers.
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== Evolutionary Conservation ==
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==Overview==
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[[Image:Consurf_key_small.gif|200px|right]]
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The structure at 100K of integral membrane light-harvesting complex II (LH2) from Rhodopseudomonas acidophila strain 10050 has been refined to 2.0A resolution. The electron density has been significantly improved, compared to the 2.5A resolution map, by high resolution data, cryo-cooling and translation, libration, screw (TLS) refinement. The electron density reveals a second carotenoid molecule, the last five C-terminal residues of the alpha-chain and a carboxy modified alpha-Met1 which forms the ligand of the B800 bacteriochlorophyll. TLS refinement has enabled the characterisation of displacements between molecules in the complex. B850 bacteriochlorophyll molecules are arranged in a ring of 18 pigments composed of nine approximate dimers. These pigments are strongly coupled and at their equilibrium positions the excited state dipole interaction energies, within and between dimers, are approximately 370cm(-1) and 280cm(-1), respectively. This difference in coupling energy is similar in magnitude to changes in interaction energies arising from the pigment displacements described by TLS tensors. The displacements appear to be non-random in nature and appear to be designed to optimise the modulation of pigment energy interactions. This is the first time that LH2 pigment displacements have been quantified experimentally. The calculated energy changes indicate that there may be significant contributions to inter-pigment energy interactions from molecular displacements and these may be of importance to photosynthetic energy transfer.
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Check<jmol>
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<jmolCheckbox>
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==About this Structure==
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/nk/1nkz_consurf.spt"</scriptWhenChecked>
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1NKZ is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Rhodoblastus_acidophilus Rhodoblastus acidophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NKZ OCA].
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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==Reference==
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</jmolCheckbox>
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The structure and thermal motion of the B800-850 LH2 complex from Rps.acidophila at 2.0A resolution and 100K: new structural features and functionally relevant motions., Papiz MZ, Prince SM, Howard T, Cogdell RJ, Isaacs NW, J Mol Biol. 2003 Mar 7;326(5):1523-38. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12595263 12595263]
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1nkz ConSurf].
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[[Category: Protein complex]]
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Rhodoblastus acidophilus]]
[[Category: Rhodoblastus acidophilus]]
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[[Category: Cogdell, R J.]]
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[[Category: Cogdell RJ]]
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[[Category: Howard, T]]
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[[Category: Howard T]]
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[[Category: Isaacs, N W.]]
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[[Category: Isaacs NW]]
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[[Category: Papiz, M Z.]]
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[[Category: Papiz MZ]]
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[[Category: Prince, S M.]]
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[[Category: Prince SM]]
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[[Category: BCL]]
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[[Category: BEN]]
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[[Category: BOG]]
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[[Category: RG1]]
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[[Category: bacteriochlorophyll some]]
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[[Category: light harvesting complex ii]]
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[[Category: membrane protein]]
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[[Category: photosynthesis]]
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[[Category: rhodopin glucoside]]
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[[Category: trans-membrane helice]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 12:58:12 2008''
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Current revision

Crystal structure of LH2 B800-850 from Rps. acidophila at 2.0 Angstrom resolution

PDB ID 1nkz

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