EMDB < Search results

EMBL

was set up in 1974 as Europe’s flagship laboratory for the life sciences – an intergovernmental organisation with more than 80 independent research groups covering the spectrum of molecular biology:

Research:

perform basic research in molecular biology

Services:

offer vital services to scientists in the member states

Training

scientists, students and visitors at all levels

Transfer

and development of technology

Develop

new instruments and methods

Integrating

life science research in Europe

More about EMBL

Six sites

represent EMBL in Europe.

Barcelona

Tissue biology and disease modelling

Grenoble

Structural biology

Hamburg

Structural biology

Heidelberg

Main laboratory

Hinxton

EMBL-EBI: European Bioinformatics Institute

Rome

Epigenetics and neurobiology

Edit your search query here and hit Return to execute it:

sample_name:"IRON/SULFUR CLUSTER" AND author_orcid:"0000-0003-1981-1017" AND sample_type:"complex" AND resolution:[2 TO 3}

Sort by: Download

Showing 1 - 5 of 5. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [5]

Format:

Select the script type:

Shell (Unix-based) Batch (Windows-based)

Preview first 10

EMD-11588

Download Map 3D View

Structure of low-light grown Chlorella ohadii Photosystem I

Release date: July 28, 2021
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 6zzx
Q-score: 0.621

Caspy I, Neumann E, Fadeeva M, Liveanu V, Savitsky A, Frank A, Kalisman YL, Shkolnisky Y, Murik O, Treves H, Hartmann V, Nowaczyk MM, Schuhmann W, Rogner M, Willner I, Kaplan A, Schuster G, Nelson N, Lubitz W, Nechushtai R

Nat Plants (2021) 7 pp. 1314-1322 [ DOI: doi:10.1038/s41477-021-00983-1 Pubmed: 34462576 ]

Sample:

(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 (600 Da, Ligand)
Tripalmitoylglycerol (807 Da, Ligand)
Photosystem i reaction center subunit vi-chloroplastic-like (10 kDa, Protein from Freshwater green alga)
Photosystem i subunit o (9 kDa, Protein from Freshwater green alga)
Beta,beta-caroten-4-one (550 Da, Ligand)
O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
Photosystem i reaction center subunit xi (16 kDa, Protein from Freshwater green alga)
Phosphatidylethanolamine (734 Da, Ligand)
1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
Beta-carotene (536 Da, Ligand)
(3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
Phylloquinone (450 Da, Ligand)
Glutathione reductase (26 kDa, Protein from Freshwater green alga)
Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
Palmitic acid (256 Da, Ligand)
Chlorophyll a-b binding protein, chloroplastic (25 kDa, Protein from Freshwater green alga)
Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Freshwater green alga)
Photosystem i reaction center subunit chloroplastic (8 kDa, Protein from Freshwater green alga)
Photosystem i reaction center subunit iv (7 kDa, Protein from Freshwater green alga)
Photosystem i reaction center subunit xii (3 kDa, Protein from Freshwater green alga)
Photosystem i reaction center subunit ix (4 kDa, Protein from Freshwater green alga)
Astaxanthin (596 Da, Ligand)
Oleic acid (282 Da, Ligand)
[2-((1-oxododecanoxy-(2-hydroxy-3-propanyl))-phosphonate-oxy)-ethyl]-trimethylammonium (440 Da, Ligand)
Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Freshwater green alga)
Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Freshwater green alga)
(3r)-beta,beta-caroten-3-ol (552 Da, Ligand)
Lhca4 (23 kDa, Protein from Freshwater green alga)
1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
Chlorophyll a-b binding protein, chloroplastic (19 kDa, Protein from Freshwater green alga)
1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
Photosystem i iron-sulfur center (8 kDa, Protein from Freshwater green alga)
Iron/sulfur cluster (351 Da, Ligand)
Chlorophyll a-b binding protein, chloroplastic (19 kDa, Protein from Freshwater green alga)
Chlorophyll b (907 Da, Ligand)
(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 (600 Da, Ligand)
Photosystem i reaction center subunit viii (3 kDa, Protein from Freshwater green alga)
Photosystem i reaction center subunit chloroplastic (10 kDa, Protein from Freshwater green alga)
Lhca7 (24 kDa, Protein from Freshwater green alga)
Chlorophyll a-b binding protein, chloroplastic (25 kDa, Protein from Freshwater green alga)
Photosystem i reaction center subunit chloroplastic (15 kDa, Protein from Freshwater green alga)
Photosystem i (1 MDa, Complex from Chlorella ohadii)
Chlorophyll a (893 Da, Ligand)
Diacyl glycerol (625 Da, Ligand)
Water (18 Da, Ligand)
Benzene-1,3,5-triol (126 Da, Ligand)
1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
Psi-f (18 kDa, Protein from Freshwater green alga)
Dodecyl-beta-d-maltoside (510 Da, Ligand)
Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Freshwater green alga)
Sphingosine (299 Da, Ligand)
Chlorophyll a isomer (893 Da, Ligand)
(2s)-3-{[(r)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate (453 Da, Ligand)
(3~{e},5~{e},7~{e})-6-methyl-8-[(6~{r})-2,2,6-trimethylcyclohexyl]octa-3,5,7-trien-2-one (260 Da, Ligand)

[Show more]

EMD-11326

Download Map 3D View

Photosystem I reduced Plastocyanin Complex

Release date: June 16, 2021
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 6zoo
Q-score: 0.56

Caspy I, Fadeeva M, Kuhlgert S, Borovikova-Sheinker A, Klaiman D, Masrati G, Drepper F, Ben-Tal N, Hippler M, Nelson N

Biochem J (2021) 478 pp. 2371-2384 [ DOI: doi:10.1042/BCJ20210267 Pubmed: 34085703 ]

Sample:

Copper (ii) ion (63 Da, Ligand)
Chlorophyll a-b binding protein p4, chloroplastic (21 kDa, Protein from Garden pea)
1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
Beta-carotene (536 Da, Ligand)
(3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
Phylloquinone (450 Da, Ligand)
Photosystem i iron-sulfur center (8 kDa, Protein from Garden pea)
Chlorophyll a-b binding protein 3, chloroplastic (24 kDa, Protein from Garden pea)
Chlorophyll a isomer (893 Da, Ligand)
Photosystem i reaction center (10 kDa, Protein from Garden pea)
Photosystem i reaction center subunit vi,photosystem i reaction center subunit vi (10 kDa, Protein from Garden pea)
Psal domain-containing protein (16 kDa, Protein from Garden pea)
Calcium ion (40 Da, Ligand)
Chlorophyll a-b binding protein, chloroplastic (22 kDa, Protein from Garden pea)
1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
Iron/sulfur cluster (351 Da, Ligand)
Chlorophyll b (907 Da, Ligand)
(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 (600 Da, Ligand)
Chlorophyll a-b binding protein 6, chloroplastic (21 kDa, Protein from Garden pea)
Photosystem i reaction center subunit iii (17 kDa, Protein from Garden pea)
Putative uncharacterized protein (7 kDa, Protein from Garden pea)
Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Garden pea)
Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Garden pea)
Plastocyanin, chloroplastic (10 kDa, Protein from Garden pea)
Chlorophyll a (893 Da, Ligand)
Photosystem i plastocyanin complex (650 kDa, Complex from Pisum sativum)
Photosystem i reaction center subunit ix (4 kDa, Protein from Garden pea)
Water (18 Da, Ligand)
Photosystem i reaction center subunit x psak (8 kDa, Protein from Garden pea)
1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
Dodecyl-beta-d-maltoside (510 Da, Ligand)
Photosystem i reaction center subunit viii (3 kDa, Protein from Garden pea)
Psad (16 kDa, Protein from Garden pea)

[Show more]

EMD-10746

Download Map 3D View

Plant PSI-ferredoxin supercomplex

Release date: Sept. 30, 2020
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 6yac
Q-score: 0.601

Caspy I, Borovikova-Sheinker A, Klaiman D, Shkolnisky Y, Nelson N

Nat Plants (2020) 6 pp. 1300-1305 [ DOI: doi:10.1038/s41477-020-00779-9 Pubmed: 33020607 ]

Sample:

Psaf (17 kDa, Protein from Pea)
Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Pea)
Chlorophyll a-b binding protein p4, chloroplastic (21 kDa, Protein from Pea)
Phylloquinone (450 Da, Ligand)
Ferredoxin-1, chloroplastic (10 kDa, Protein from Pea)
Psad (16 kDa, Protein from Pea)
Fe2/s2 (inorganic) cluster (175 Da, Ligand)
Chlorophyll a isomer (893 Da, Ligand)
Chlorophyll a (893 Da, Ligand)
Chlorophyll b (907 Da, Ligand)
1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
(3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
Beta-carotene (536 Da, Ligand)
Photosystem i iron-sulfur center (8 kDa, Protein from Pea)
Psal (16 kDa, Protein from Pea)
Calcium ion (40 Da, Ligand)
Psae (7 kDa, Protein from Pea)
(1~{s})-3,5,5-trimethyl-4-[(1~{e},3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-[(4~{s})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol (568 Da, Ligand)
Psag (10 kDa, Protein from Pea)
Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Pea)
Chlorophyll a-b binding protein, chloroplastic (22 kDa, Protein from Pea)
Psah (9 kDa, Protein from Pea)
Chlorophyll a-b binding protein 3, chloroplastic (24 kDa, Protein from Pea)
Water (18 Da, Ligand)
Lhca1 (21 kDa, Protein from Pea)
Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
Photosystem i reaction center subunit x psak (8 kDa, Protein from Pea)
Pea photosystem i in complex with ferredoxin (660 kDa, Complex from Pisum sativum)
Photosystem i reaction center subunit viii (3 kDa, Protein from Pea)
(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 (600 Da, Ligand)
Photosystem i reaction center subunit ix (4 kDa, Protein from Pea)
Dodecyl-beta-d-maltoside (510 Da, Ligand)
Iron/sulfur cluster (351 Da, Ligand)

[Show more]

EMD-10798

Download Map 3D View

Plant PSI-ferredoxin-plastocyanin supercomplex

Release date: Sept. 30, 2020
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 6yez
Q-score: 0.536

Caspy I, Borovikova-Sheinker A, Klaiman D, Shkolnisky Y, Nelson N

Nat Plants (2020) 6 pp. 1300-1305 [ DOI: doi:10.1038/s41477-020-00779-9 Pubmed: 33020607 ]

Sample:

Psaf (17 kDa, Protein from Pea)
Phylloquinone (450 Da, Ligand)
Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Garden pea)
Psad (16 kDa, Protein from Pea)
Lhca1 (21 kDa, Protein from Pea)
Chlorophyll a isomer (893 Da, Ligand)
Chlorophyll a (893 Da, Ligand)
Psae (7 kDa, Protein from Pea)
Chlorophyll b (907 Da, Ligand)
1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
Chlorophyll a-b binding protein p4, chloroplastic (21 kDa, Protein from Garden pea)
Triple complex of photosystem i bound to ferredoxin and plastocyanin (660 kDa, Complex from Pisum sativum)
Beta-carotene (536 Da, Ligand)
(3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
Psal (16 kDa, Protein from Pea)
Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Garden pea)
Calcium ion (40 Da, Ligand)
Plastocyanin, chloroplastic (10 kDa, Protein from Garden pea)
Photosystem i reaction center subunit x psak (8 kDa, Protein from Garden pea)
Photosystem i reaction center subunit viii (3 kDa, Protein from Garden pea)
(1~{s})-3,5,5-trimethyl-4-[(1~{e},3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-[(4~{s})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol (568 Da, Ligand)
Psag (10 kDa, Protein from Pea)
Water (18 Da, Ligand)
Chlorophyll a-b binding protein 3, chloroplastic (24 kDa, Protein from Garden pea)
Psah (10 kDa, Protein from Pea)
Iron/sulfur cluster (351 Da, Ligand)
Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
Fe2/s2 (inorganic) cluster (175 Da, Ligand)
Chlorophyll a-b binding protein, chloroplastic (22 kDa, Protein from Garden pea)
(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 (600 Da, Ligand)
Photosystem i iron-sulfur center (8 kDa, Protein from Garden pea)
Copper (ii) ion (63 Da, Ligand)
Psaj (4 kDa, Protein from Pea)
Dodecyl-beta-d-maltoside (510 Da, Ligand)
Ferredoxin-1, chloroplastic (10 kDa, Protein from Garden pea)

[Show more]

EMD-10236

Download Map 3D View

Dunaliella Photosystem I Supercomplex

Release date: June 24, 2020
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 6sl5
Q-score: 0.53

Caspy I, Malavath T, Klaiman D, Fadeeva M, Shkolnisky Y, Nelson N

Biochim Biophys Acta Bioenerg (2020) 1861 pp. 148253-148253 [ Pubmed: 32569661 DOI: doi:10.1016/j.bbabio.2020.148253 ]

Sample:

Psah (10 kDa, Protein from Dunaliella salina)
Phylloquinone (450 Da, Ligand)
Trimethyl-[(2~{r})-1-oxidanyl-1-oxidanylidene-4-[(2~{s})-2-[(1~{s})-1-oxidanyloctadecoxy]-3-[(1~{r})-1-oxidanyloctadecoxy]propoxy]butan-2-yl]azanium (773 Da, Ligand)
Lhca4 (23 kDa, Protein from Dunaliella salina)
Chlorophyll a isomer (893 Da, Ligand)
[(2~{r})-1-nonanoyloxy-3-[oxidanyl-[(2~{r},3~{s},5~{r},6~{r})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl]oxy-phosphoryl]oxy-propan-2-yl] (5~{z},8~{z})-heptadeca-5,8-dienoate (722 Da, Ligand)
Psaf (18 kDa, Protein from Dunaliella salina)
Chlorophyll a (893 Da, Ligand)
Large dunaliella salina photosystem i-lhc supercomplex (Complex from Dunaliella salina)
Lhca5 (21 kDa, Protein from Dunaliella salina)
Chlorophyll b (907 Da, Ligand)
1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
Psae (7 kDa, Protein from Dunaliella salina)
1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
(3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
Beta-carotene (536 Da, Ligand)
Psal (16 kDa, Protein from Dunaliella salina)
Calcium ion (40 Da, Ligand)
Tripalmitoylglycerol (807 Da, Ligand)
Psak (8 kDa, Protein from Dunaliella salina)
Psad (16 kDa, Protein from Dunaliella salina)
Psai (4 kDa, Protein from Dunaliella salina)
Chlorophyll a-b binding protein, chloroplastic (21 kDa, Protein from Dunaliella salina)
1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
Photosystem i reaction center subunit ix (4 kDa, Protein from Dunaliella salina)
Dodecyl-alpha-d-maltoside (510 Da, Ligand)
Lhca2 (22 kDa, Protein from Dunaliella salina)
Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Dunaliella salina)
Iron/sulfur cluster (351 Da, Ligand)
Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
Photosystem i iron-sulfur center (8 kDa, Protein from Dunaliella salina)
Phosphatidylethanolamine (734 Da, Ligand)
Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Dunaliella salina)
Photosystem i p700 chlorophyll a apoprotein a1 (81 kDa, Protein from Dunaliella salina)
Lhca6 (19 kDa, Protein from Dunaliella salina)
(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 (600 Da, Ligand)
Psao (9 kDa, Protein from Dunaliella salina)
Octadecanal (268 Da, Ligand)
Psag (10 kDa, Protein from Dunaliella salina)

[Show more]

Sort by: Download

Showing 1 - 5 of 5. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [5]

Format:

Select the script type:

Shell (Unix-based) Batch (Windows-based)

Preview first 10

Field: