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- EMDB-72808: Focused refinement of Macrocystis pyrifera PSI-FCP around FCP3 -

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Basic information

Entry
Database: EMDB / ID: EMD-72808
TitleFocused refinement of Macrocystis pyrifera PSI-FCP around FCP3
Map data
Sample
  • Complex: Supercomplex of Macrocystis pyrifera photosystem I and FCP antenna
KeywordsPhotosystem I / Brown algae / Macrocystis pyrifera / PHOTOSYNTHESIS
Biological speciesMacrocystis pyrifera (giant kelp)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.05 Å
AuthorsMaturana P / Maldonado M
Funding support United States, 2 items
OrganizationGrant numberCountry
Other privateUCD Hellman Foundation United States
Other privateS2C2 C-S2C-ST-CA237
CitationJournal: Nat Commun / Year: 2026
Title: Structure of giant kelp Photosystem I-FCP uncovers drivers of antenna evolution across the red lineage.
Authors: Jenevieve D Weissman / Pablo Maturana / Hui M O Oung / Reece Riddle / Gabrielle Wyatt / Viktoria G T Dubinin / Philipp Zerbe / María Maldonado /
Abstract: Brown algae and other red-algae-derived organisms are major contributors to global CO fixation via photosynthesis. To understand the photosynthetic function of brown algae, we obtained the structure ...Brown algae and other red-algae-derived organisms are major contributors to global CO fixation via photosynthesis. To understand the photosynthetic function of brown algae, we obtained the structure of giant kelp Macrocystis pyrifera photosystem I (PSI) with a fucoxanthin-chlorophyll-protein (FCP) antenna and compared it to known structures from the red-algal lineage. We identified differences in M. pyrifera's antenna composition, architecture, and chlorophyll networks, as well as a pronounced variation in transmembrane hydrophobic thickness across the PSI-FCP supercomplex, with implications for photochemical function. Our work lays the foundation to understand kelp's high photosynthetic productivity and reveals drivers of antenna conservation and diversification for the red lineage.
History
DepositionSep 22, 2025-
Header (metadata) releaseJun 10, 2026-
Map releaseJun 10, 2026-
UpdateJun 10, 2026-
Current statusJun 10, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_72808.png

Downloads & links

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Map

FileDownload / File: emd_72808.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.22 Å/pix.
x 512 pix.
= 623.104 Å		1.22 Å/pix.
x 512 pix.
= 623.104 Å		1.22 Å/pix.
x 512 pix.
= 623.104 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.217 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.8
Minimum - Maximum-6.52575 - 12.005233
Average (Standard dev.)0.0016504717 (±0.08691175)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions512512512
Spacing512512512
CellA=B=C: 623.104 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_72808_msk_1.map
Projections & Slices
AxesZYX

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Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_72808_half_map_1.map
Projections & Slices
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Histogram

Histogram (log scale)

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Half map: #2

Fileemd_72808_half_map_2.map
Projections & Slices
AxesZYX

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Sample components

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Entire : Supercomplex of Macrocystis pyrifera photosystem I and FCP antenna

EntireName: Supercomplex of Macrocystis pyrifera photosystem I and FCP antenna
Components
  • Complex: Supercomplex of Macrocystis pyrifera photosystem I and FCP antenna

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Supramolecule #1: Supercomplex of Macrocystis pyrifera photosystem I and FCP antenna

SupramoleculeName: Supercomplex of Macrocystis pyrifera photosystem I and FCP antenna
type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Macrocystis pyrifera (giant kelp)

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.5
Component:
ConcentrationNameFormula
15.0 mMHEPES
20.0 mMPotassium chlorideKCl
5.0 mMSodium chlorideNaCl
0.01 w/vGDNC56H92O25
0.1 w/vDigitonin
GridModel: Quantifoil R1.2/1.3 / Material: GOLD / Mesh: 300 / Support film - Material: CARBON / Support film - topology: HOLEY ARRAY
VitrificationCryogen name: ETHANE / Chamber humidity: 90 %
Details1 mg/mL of Chl

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Number grids imaged: 1 / Number real images: 15690 / Average exposure time: 4.95 sec. / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.05 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4.5.1) / Number images used: 133000
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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