7e0h

LHCII-1 in the state transition supercomplex PSI-LHCI-LHCII from the LhcbM1 lacking mutant of Chlamydomonas reinhardtii

Method: ELECTRON MICROSCOPY Dmax: 84.8 Å Quality: GOOD

1. Protein Identity and Related Structures Protein Identity & Related Structures

Chlorophyll a-b binding protein, chloroplastic

OrganismNot specified

UniProt Q93WE0

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 3 PDB declaration: trimeric(3) Consistent with protein copy count Chain X; UniProt 1–249 Not recorded Chlorophyll a-b binding protein, chloroplastic × 2 (Q93WL4) CHL CHLOROPHYLL B × 18 CLA CHLOROPHYLL A × 24 LUT (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL × 6 XAT (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL × 3 NEX (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL × 3 LHG 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE × 3 ELECTRON MICROSCOPY cryo-EM buffer:pH 6.5 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.75 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

8 other PDB entries and 8 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q93WE0_CHLRE
Isoform
PDB entities 1
Chains and sequence ranges Author chain X; PDBConstruct 1–249; UniProt 1–249

Chlorophyll a-b binding protein, chloroplastic

OrganismNot specified

UniProt Q93WL4

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 3 PDB declaration: trimeric(3) Consistent with protein copy count Chain Y; UniProt 1–257 Chain Z; UniProt 1–257 Not recorded Chlorophyll a-b binding protein, chloroplastic × 1 (Q93WE0) CHL CHLOROPHYLL B × 18 CLA CHLOROPHYLL A × 24 LUT (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL × 6 XAT (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL × 3 NEX (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL × 3 LHG 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE × 3 ELECTRON MICROSCOPY cryo-EM buffer:pH 6.5 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.75 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

10 other PDB entries and 10 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q93WL4_CHLRE
Isoform
PDB entities 2
Chains and sequence ranges Author chain Y; PDBConstruct 1–257; UniProt 1–257 Author chain Z; PDBConstruct 1–257; UniProt 1–257

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 7e0h

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 7e0h
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2. Structure Basics 2. Structure Basics

Entry ID entry_id7e0h
Deposition date deposition_date2021-01-28
Structure title titleLHCII-1 in the state transition supercomplex PSI-LHCI-LHCII from the LhcbM1 lacking mutant of Chlamydomonas reinhardtii
Keywords keywordsSupercomplex, LHCII, state transition, green alga, Chlamydomonas reinhardtii, PHOTOSYNTHESIS; PHOTOSYNTHESIS
Experimental Method methodELECTRON MICROSCOPY

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier30.20
Radius of gyration Rg (electron density) rg_electron27.89
Forward intensity I(0) i0114849000.00
Molecular weight molecular_weight111980.0 kDa
Excluded volume excluded_volume150330 ų
Envelope volume envelope_volume162520 ų
Hydration-shell volume shell_volume45672 ų
Envelope diameter envelope_diameter89.4
Shell Rg shell_rg37.52
Envelope Rg envelope_rg28.03
Shape Rg shape_rg27.89
Total Rg total_rg29.01
Total atoms total_atoms8017
Residues n_residues661
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax84.8
Rg (real space) rg_real29.93
Rg uncertainty (real space) rg_real_error0.39
I(0) (real space) i0_real1.1480e+08
I(0) uncertainty (real space) i0_real_error1.4990e+06
Rg (reciprocal space) rg_reciprocal30.05
I(0) (reciprocal space) i0_reciprocal114900000.0000
Solution quality estimate total_estimate0.8987
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary42.4
Skewness Skewness skewness-0.066
Kurtosis Kurtosis kurtosis-0.483
Angular range angular_range— – 0.2600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha7747000.0000
Real-space data points n_real_points53
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.955; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.968; Smooth: 0.846

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (8)

8. Citations (1)

9. Files and Curves (10)