4v8k: Difference between revisions

Revision as of 08:12, 29 March 2023

Crystal structure of the LH1-RC complex from Thermochromatium tepidum in P21 form

Structural highlights

4v8k is a 72 chain structure with sequence from Thermochromatium tepidum. This structure supersedes the now removed PDB entries 3wmn and 3wmo. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	BCL, BPH, CA, CRT, FE, HEM, MQ8, PEF, PO4, UQ8
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

A8ASG6_THETI

Publication Abstract from PubMed

The light-harvesting core antenna (LH1) and the reaction centre (RC) of purple photosynthetic bacteria form a supramolecular complex (LH1-RC) to use sunlight energy in a highly efficient manner. Here we report the first near-atomic structure, to our knowledge, of a LH1-RC complex, namely that of a Ca2+-bound complex from Thermochromatium tepidum, which reveals detailed information on the arrangement and interactions of the protein subunits and the cofactors. The RC is surrounded by 16 heterodimers of the LH1 alphabeta-subunit that form a completely closed structure. The Ca2+ ions are located at the periplasmic side of LH1. Thirty-two bacteriochlorophyll and 16 spirilloxanthin molecules in the LH1 ring form an elliptical assembly. The geometries of the pigment assembly involved in the absorption characteristics of the bacteriochlorophyll in LH1 and excitation energy transfer among the pigments are reported. In addition, possible ubiquinone channels in the closed LH1 complex are proposed based on the atomic structure.

Structure of the LH1-RC complex from Thermochromatium tepidum at 3.0 A,Niwa S, Yu LJ, Takeda K, Hirano Y, Kawakami T, Wang-Otomo ZY, Miki K Nature. 2014 Mar 26. doi: 10.1038/nature13197. PMID:24670637^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Niwa S, Yu LJ, Takeda K, Hirano Y, Kawakami T, Wang-Otomo ZY, Miki K. Structure of the LH1-RC complex from Thermochromatium tepidum at 3.0 A Nature. 2014 Mar 26. doi: 10.1038/nature13197. PMID:24670637 doi:https://dx.doi.org/10.1038/nature13197

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Niwa S, Yu LJ, Takeda K, Hirano Y, Kawakami T, Wang-Otomo ZY, Miki K. Structure of the LH1-RC complex from Thermochromatium tepidum at 3.0 A Nature. 2014 Mar 26. doi: 10.1038/nature13197. PMID:24670637 doi:https://dx.doi.org/10.1038/nature13197

[1]

@@ Line 3: / Line 3: @@
 <StructureSection load='4v8k' size='340' side='right'caption='[[4v8k]], [[Resolution|resolution]] 3.01&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4v8k]] is a 72 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermochromatium_tepidum Thermochromatium tepidum]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3wmn 3wmn] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3wmo 3wmo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V8K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4V8K FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4v8k]] is a 72 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermochromatium_tepidum Thermochromatium tepidum]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3wmn 3wmn] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3wmo 3wmo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V8K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V8K FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BCL:BACTERIOCHLOROPHYLL+A'>BCL</scene>, <scene name='pdbligand=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CRT:SPIRILLOXANTHIN'>CRT</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MQ8:MENAQUINONE+8'>MQ8</scene>, <scene name='pdbligand=PEF:DI-PALMITOYL-3-SN-PHOSPHATIDYLETHANOLAMINE'>PEF</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=UQ8:UBIQUINONE-8'>UQ8</scene></td></tr>
+</td></tr><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=BPH:BACTERIOPHEOPHYTIN+A'>BPH</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CRT:SPIRILLOXANTHIN'>CRT</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MQ8:MENAQUINONE+8'>MQ8</scene>, <scene name='pdbligand=PEF:DI-PALMITOYL-3-SN-PHOSPHATIDYLETHANOLAMINE'>PEF</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=UQ8:UBIQUINONE-8'>UQ8</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3wmm|3wmm]]</td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4v8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v8k OCA], [https://pdbe.org/4v8k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v8k RCSB], [https://www.ebi.ac.uk/pdbsum/4v8k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v8k ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4v8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v8k OCA], [http://pdbe.org/4v8k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4v8k RCSB], [http://www.ebi.ac.uk/pdbsum/4v8k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4v8k ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/D2Z0P1_THETI D2Z0P1_THETI]] Antenna complexes are light-harvesting systems, which transfer the excitation energy to the reaction centers (By similarity).[SAAS:SAAS000066_004_008786] [[http://www.uniprot.org/uniprot/D2Z0P5_THETI D2Z0P5_THETI]] The reaction center of purple bacteria contains a tightly bound cytochrome molecule which re-reduces the photo oxidized primary electron donor (By similarity).[PIRNR:PIRNR000017] [[http://www.uniprot.org/uniprot/D2Z0P2_THETI D2Z0P2_THETI]] Antenna complexes are light-harvesting systems, which transfer the excitation energy to the reaction centers (By similarity).[SAAS:SAAS000066_004_008786]
+[https://www.uniprot.org/uniprot/A8ASG6_THETI A8ASG6_THETI]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 25: / Line 24: @@
 [[Category: Large Structures]]
 [[Category: Thermochromatium tepidum]]
-[[Category: Miki, K]]
+[[Category: Miki K]]
-[[Category: Niwa, S]]
+[[Category: Niwa S]]
-[[Category: Takeda, K]]
+[[Category: Takeda K]]
-[[Category: Wang-Otomo, Z Y]]
+[[Category: Wang-Otomo Z-Y]]
-[[Category: Photosynthesis]]

4v8k: Difference between revisions

Revision as of 08:12, 29 March 2023

Crystal structure of the LH1-RC complex from Thermochromatium tepidum in P21 form

Structural highlights

Function

Publication Abstract from PubMed

References

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Proteopedia Page Contributors and Editors (what is this?)

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