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- PDB-8jng: Methanesulfonate monooxygenase ferredoxin subunit of PBS-PSII-PSI... -

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Basic information

Entry
Database: PDB / ID: 8jng
TitleMethanesulfonate monooxygenase ferredoxin subunit of PBS-PSII-PSI-LHCs from Porphyridium purpureum.
ComponentsMethanesulfonate monooxygenase ferredoxin subunit
KeywordsPHOTOSYNTHESIS / Methanesulfonate monooxygenase ferredoxin subunit
Function / homologyRieske [2Fe-2S] domain / Rieske [2Fe-2S] iron-sulphur domain / Rieske [2Fe-2S] iron-sulfur domain profile. / Rieske [2Fe-2S] iron-sulphur domain superfamily / monooxygenase activity / 2 iron, 2 sulfur cluster binding / metal ion binding / FE2/S2 (INORGANIC) CLUSTER / Methanesulfonate monooxygenase ferredoxin subunit
Function and homology information
Biological speciesPorphyridium purpureum (eukaryote)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.2 Å
AuthorsYou, X. / Zhang, X. / Cheng, J. / Xiao, Y.N. / Sun, S. / Sui, S.F.
Funding support1items
OrganizationGrant numberCountry
Not funded
CitationJournal: To Be Published
Title: Structure of lateral hexamer of PBS-PSII-PSI-LHCs megacomplex at 6.3 Angstroms resolution.
Authors: You, X. / Zhang, X. / Cheng, J. / Xiao, Y.N. / Sun, S. / Sui, S.F.
History
DepositionJun 6, 2023Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0Aug 2, 2023Provider: repository / Type: Initial release
Revision 1.1Jul 3, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: Methanesulfonate monooxygenase ferredoxin subunit
hetero molecules


Theoretical massNumber of molelcules
Total (without water)20,9102
Polymers20,7341
Non-polymers1761
Water00
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

#1: Protein Methanesulfonate monooxygenase ferredoxin subunit


Mass: 20734.240 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Porphyridium purpureum (eukaryote) / Gene: FVE85_7812 / Production host: Porphyridium purpureum (eukaryote) / References: UniProt: A0A5J4YIW4
#2: Chemical ChemComp-FES / FE2/S2 (INORGANIC) CLUSTER


Mass: 175.820 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: Fe2S2 / Feature type: SUBJECT OF INVESTIGATION
Has ligand of interestY

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: CELL / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: Methanesulfonate monooxygenase ferredoxin subunit from Porphyridium purpureum.
Type: CELL / Entity ID: #1 / Source: NATURAL
Source (natural)Organism: Porphyridium purpureum (eukaryote)
Buffer solutionpH: 7.6
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: SPOT SCAN
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 6000 nm / Nominal defocus min: 1000 nm
Image recordingElectron dose: 35 e/Å2 / Film or detector model: GATAN K3 (6k x 4k)

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Processing

CTF correctionType: PHASE FLIPPING ONLY
3D reconstructionResolution: 3.2 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 762000 / Symmetry type: POINT

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