PSI-LHCI supercomplex binding with 10 Lhcas from C. subellipsoidea
Resolution: 1.92 Å
EM Method: Single-particle
Fitted PDBs: 9kqp
Q-score: 0.723
Tsai PC, Kato K, Shen JR, Akita F
Biochim Biophys Acta Bioenerg (2025) 1866 pp. 149543-149543 [ Pubmed: 39947506 DOI: doi:10.1016/j.bbabio.2025.149543 ]
- Photosystem i iron-sulfur center (8 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction centre subunit vi (14 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction center subunit ii, chloroplastic (20 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction centre subunit iv/psae (8 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (29 kDa, Protein from Coccomyxa subellipsoidea C-169)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Phylloquinone (450 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i psao (15 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (27 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Coccomyxa subellipsoidea C-169)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 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)
- (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 Coccomyxa subellipsoidea C-169)
- Beta-carotene (536 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (27 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Psi subunit v (21 kDa, Protein from Coccomyxa subellipsoidea C-169)
- [2-((1-oxododecanoxy-(2-hydroxy-3-propanyl))-phosphonate-oxy)-ethyl]-trimethylammonium (440 Da, Ligand)
- Astaxanthin (596 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic/lhca2 (29 kDa, Protein from Coccomyxa subellipsoidea C-169)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i reaction center subunit iii (25 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Diacyl glycerol (625 Da, Ligand)
- Photosystem i reaction center subunit v, chloroplastic (14 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Green alga photosystem i lhci supercomplex binding with 10 lhcas (Complex from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (29 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a (893 Da, Ligand)
- Unknown ligand (254 Da, Ligand)
- Chlorophyll a isomer (893 Da, Ligand)
- Psi-k (13 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Water (18 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Iron/sulfur cluster (351 Da, Ligand)
PSI-LHCI supercomplex binding with 8 Lhcas from C. subellipsoidea
Resolution: 2.06 Å
EM Method: Single-particle
Fitted PDBs: 9kqq
Q-score: 0.668
Tsai PC, Kato K, Shen JR, Akita F
Biochim Biophys Acta Bioenerg (2025) 1866 pp. 149543-149543 [ Pubmed: 39947506 DOI: doi:10.1016/j.bbabio.2025.149543 ]
- Photosystem i iron-sulfur center (8 kDa, Protein from Coccomyxa subellipsoidea C-169)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i reaction center subunit ii, chloroplastic (20 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction centre subunit iv/psae (8 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (29 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Phylloquinone (450 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (27 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Coccomyxa subellipsoidea C-169)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 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 ix (4 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Green alga photosystem i lhci supercomplex binding with 8 lhcas (Complex from Coccomyxa subellipsoidea C-169)
- Beta-carotene (536 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (27 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Psi subunit v (21 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Astaxanthin (596 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem i reaction center subunit iii (25 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Diacyl glycerol (625 Da, Ligand)
- Photosystem i reaction center subunit v, chloroplastic (14 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (29 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Unknown ligand (254 Da, Ligand)
- Chlorophyll a isomer (893 Da, Ligand)
- Psi-k (13 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Water (18 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Iron/sulfur cluster (351 Da, Ligand)
Structure of Mycobacterium smegmatis HflX bound to a 70S ribosome
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 8vio
Q-score: 0.486
Majumdar S, Kashyap A, Koripella RK, Sharma MR, Hurst-Hess K, Manjari SR, Banavali NK, Ghosh P, Agrawal RK
PNAS (2025) 122 pp. e2419826122-e2419826122 [ Pubmed: 39913204 DOI: doi:10.1073/pnas.2419826122 ]
- 50s ribosomal protein l33 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l37 (2 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l10 (18 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l11 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s13 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l31 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l23 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l9 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l17 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s15 (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 23s ribosomal rna (1 MDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l20 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l28 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s8 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s7 (17 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s6 (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l24 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l15 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Conserved domain protein (4 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l18 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s16 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 5s ribosomal rna (38 kDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s17 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s12 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l21 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l30 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l19 (12 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l22 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l13 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s14 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 16s ribosomal rna (495 kDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l4 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s5 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- E-trna (24 kDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l35 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l34 (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l3 (23 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s10 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l29 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l5 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l2 (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l6 (19 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s20 (9 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s4 (23 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l25 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s11 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis 70s ribosome bound to hflx-gmppcp complex (Complex from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l32 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s9 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Gtpase hflx (50 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s18 (9 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s2 (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s19 (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 30s ribosomal protein s3 (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l27 (9 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Rabbit Hemorrhagic Disease Virus reinitiation stimulating TURBS RNA bound to rabbit ribosome
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9c8k
Q-score: 0.256
Sherlock ME, Langeberg CJ, Segar KE, Kieft JS
Cell Rep (2025) 44 pp. 115236-115236 [ Pubmed: 39893634 DOI: doi:10.1016/j.celrep.2025.115236 ]
- Es1 (30 kDa, Protein from Oryctolagus cuniculus)
- Es8 (24 kDa, Protein from Oryctolagus cuniculus)
- Us14 (6 kDa, Protein from Oryctolagus cuniculus)
- Us4 (22 kDa, Protein from Oryctolagus cuniculus)
- Es7 (22 kDa, Protein from Oryctolagus cuniculus)
- Es12 (14 kDa, Protein from Oryctolagus cuniculus)
- Us7 (22 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein es19 (16 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein es17 (15 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein es24 (15 kDa, Protein from Oryctolagus cuniculus)
- S10_plectin domain-containing protein (18 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein es30 (6 kDa, Protein from Oryctolagus cuniculus)
- Us13 (17 kDa, Protein from Oryctolagus cuniculus)
- Us8 (14 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein us5 (31 kDa, Protein from Oryctolagus cuniculus)
- Es28 (7 kDa, Protein from Oryctolagus cuniculus)
- Es31 (18 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein us2 (32 kDa, Protein from Oryctolagus cuniculus)
- Us12 (15 kDa, Protein from Oryctolagus cuniculus)
- Rabbit hemorrhagic disease virus reinitiation stimulating turbs rna bound to rabbit ribosome (Complex from Oryctolagus cuniculus)
- 40s ribosomal protein es4 (29 kDa, Protein from Oryctolagus cuniculus)
- Es6 (28 kDa, Protein from Oryctolagus cuniculus)
- Es21 (9 kDa, Protein from Oryctolagus cuniculus)
- Us15 (17 kDa, Protein from Oryctolagus cuniculus)
- Es25 (13 kDa, Protein from Oryctolagus cuniculus)
- 18s ribosomal rna (602 kDa, RNA from Oryctolagus cuniculus)
- Small ribosomal subunit protein us11 (16 kDa, Protein from Oryctolagus cuniculus)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein us3 (26 kDa, Protein from Oryctolagus cuniculus)
- Us10 (13 kDa, Protein from Oryctolagus cuniculus)
- Us9 (16 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein us19 (17 kDa, Protein from Oryctolagus cuniculus)
- Es27 (9 kDa, Protein from Oryctolagus cuniculus)
- Zinc ion (65 Da, Ligand)
- Receptor for activated c kinase 1 (rack1) (35 kDa, Protein from Oryctolagus cuniculus)
- Rhdv reinitiation stimulating element rna (29 kDa, RNA from Rabbit hemorrhagic disease virus)
- 40s ribosomal protein s26 (13 kDa, Protein from Oryctolagus cuniculus)
- Us17 (18 kDa, Protein from Oryctolagus cuniculus)
CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME : LM32Cs1C1 snoRNA overexpression
Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 8qhu
Q-score: 0.622
To Be Published
- 40s ribosomal protein s5 (21 kDa, Protein from Leishmania major strain Friedlin)
- 60s ribosomal protein l37a (10 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s19-like protein (18 kDa, Protein from Leishmania major strain Friedlin)
- E-site_trna_chain_s4 (24 kDa, RNA from Leishmania major strain Friedlin)
- Putative rna binding protein (25 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s4 (30 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l28 (16 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s15 (17 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s21 (17 kDa, Protein from Leishmania major strain Friedlin)
- Potassium ion (39 Da, Ligand)
- Putative 40s ribosomal protein s16 (16 kDa, Protein from Leishmania major strain Friedlin)
- 60s ribosomal protein l27 (15 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l36 (11 kDa, Protein from Leishmania major strain Friedlin)
- 60s ribosomal protein l30 (11 kDa, Protein from Leishmania major strain Friedlin)
- Water (18 Da, Ligand)
- Putative 60s ribosomal protein l35 (15 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l39 (6 kDa, Protein from Leishmania major strain Friedlin)
- 60s ribosomal protein l32 (15 kDa, Protein from Leishmania major strain Friedlin)
- Lsub_rrna_chain_2 (492 kDa, RNA from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l23a (16 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s18 (17 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein l14 (19 kDa, Protein from Leishmania major strain Friedlin)
- Small ribosomal subunit protein rack1 (34 kDa, Protein from Leishmania major strain Friedlin)
- Putative ribosomal protein l35a (16 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l27a/l29 (16 kDa, Protein from Leishmania major strain Friedlin)
- Putative ribosomal protein l24 (14 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l34 (19 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s26 (12 kDa, Protein from Leishmania major strain Friedlin)
- 60s ribosomal protein l18 (22 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s14 (15 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l7 (28 kDa, Protein from Leishmania major strain Friedlin)
- Ssu_rrna_chain_s1 (710 kDa, RNA from Leishmania major strain Friedlin)
- 60s ribosomal protein l29 (8 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l26 (16 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l19 (28 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l9 (21 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l21 (18 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s30 (7 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l44 (12 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l5 (34 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s23 (15 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l2 (28 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l13 (24 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s3 (24 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s24 (15 kDa, Protein from Leishmania major strain Friedlin)
- Cryo-em structure of leishmania major 80s ribosome : lm32cs1c1 snorna overexpression (Complex from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s11 (20 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s12 (15 kDa, Protein from Leishmania major strain Friedlin)
- Sr4_chain_5 (43 kDa, RNA from Leishmania major strain Friedlin)
- Putative ribosomal protein s29 (6 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s2 (28 kDa, Protein from Leishmania major strain Friedlin)
- 5s_rrna_chain_8 (39 kDa, RNA from Leishmania major strain Friedlin)
- 60s ribosomal protein l11 (21 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l17 (19 kDa, Protein from Leishmania major strain Friedlin)
- 60s ribosomal protein l41 (4 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l22 (15 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s10 (18 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l6 (21 kDa, Protein from Leishmania major strain Friedlin)
- Putative ribosomal protein s20 (13 kDa, Protein from Leishmania major strain Friedlin)
- Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s25 (13 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s8 (24 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s7 (23 kDa, Protein from Leishmania major strain Friedlin)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l18a (20 kDa, Protein from Leishmania major strain Friedlin)
- Putative ribosomal protein l1a (41 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s13 (17 kDa, Protein from Leishmania major strain Friedlin)
- Ribosomal protein l15 (24 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s3a (30 kDa, Protein from Leishmania major strain Friedlin)
- Sodium ion (22 Da, Ligand)
- Ubiquitin-60s ribosomal protein l40 (17 kDa, Protein from Leishmania major strain Friedlin)
- 60s ribosomal protein l7a (29 kDa, Protein from Leishmania major strain Friedlin)
- Sr6_chain_6 (23 kDa, RNA from Leishmania major strain Friedlin)
- 5.8s_rrna_chain_7 (54 kDa, RNA from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s27-1 (9 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l13a (25 kDa, Protein from Leishmania major strain Friedlin)
- Putative ribosomal protein l38 (9 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal subunit protein l31 (21 kDa, Protein from Leishmania major strain Friedlin)
- Ribosomal protein l37 (9 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s15a (14 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s17 (16 kDa, Protein from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s9 (22 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein s6 (28 kDa, Protein from Leishmania major strain Friedlin)
- Rna (1646-mer) (577 kDa, RNA from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l10 (24 kDa, Protein from Leishmania major strain Friedlin)
- Putative ribosomal protein l3 (47 kDa, Protein from Leishmania major strain Friedlin)
- Putative 60s ribosomal protein l23 (14 kDa, Protein from Leishmania major strain Friedlin)
- 40s ribosomal protein sa (27 kDa, Protein from Leishmania major strain Friedlin)
- Sr2_chain_4 (59 kDa, RNA from Leishmania major strain Friedlin)
- Putative 40s ribosomal protein s33 (9 kDa, Protein from Leishmania major strain Friedlin)
- Sr1_chain_3 (69 kDa, RNA from Leishmania major strain Friedlin)
PAO1 wild-type ribosome, R, reference map
Resolution: 2.46 Å
EM Method: Single-particle
Fitted PDBs: 8rwg
Q-score: 0.554
Mesa P, Jimenez-Fernandez A, La Rosa R, Espinosa-Portero R, Johansen HK, Molin S, Montoya G
To Be Published
- 50s ribosomal protein l34 (5 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l13 (16 kDa, Protein from Pseudomonas aeruginosa PAO1)
- Large ribosomal subunit protein ul22 (11 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l25 (21 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s21 (8 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s15 (10 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l4 (21 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l20 (13 kDa, Protein from Pseudomonas aeruginosa PAO1)
- Large ribosomal subunit protein bl33 (6 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s8 (14 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l15 (15 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s3 (25 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s12 (13 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s20 (9 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l14 (13 kDa, Protein from Pseudomonas aeruginosa PAO1)
- Pao1 wild-type ribosome (Complex from Pseudomonas aeruginosa PAO1)
- 23s ribosomal rna (936 kDa, RNA from Pseudomonas aeruginosa PAO1)
- 16s ribosomal rna (497 kDa, RNA from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l18 (12 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s6 (16 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 5s ribosomal rna (38 kDa, RNA from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s13 (13 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s16 (9 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l21 (11 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s5 (17 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s10 (11 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s19 (10 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l6 (19 kDa, Protein from Pseudomonas aeruginosa PAO1)
- Water (18 Da, Ligand)
- 30s ribosomal protein s7 (17 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s17 (10 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s2 (27 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l17 (14 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s18 (8 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l19 (13 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l28 (9 kDa, Protein from Pseudomonas aeruginosa PAO1)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l24 (11 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l3 (22 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l32 (6 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l9 (15 kDa, Protein from Pseudomonas aeruginosa PAO1)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l35 (7 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s4 (23 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l27 (9 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l23 (10 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l16 (15 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l30 (6 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l29 (7 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s9 (14 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s14 (11 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 30s ribosomal protein s11 (13 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l2 (29 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l5 (20 kDa, Protein from Pseudomonas aeruginosa PAO1)
- 50s ribosomal protein l36 (4 kDa, Protein from Pseudomonas aeruginosa PAO1)
Cryo-EM structure of the human ubiquitylated 40S ribosome with RIOK3
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8zdb
Q-score: 0.414
Huang Z, Diehl FF, Wang M, Li Y, Song A, Chen FX, Rosa-Mercado NA, Beckmann R, Green R, Cheng J
Mol Cell (2025) [ Pubmed: 39947183 DOI: doi:10.1016/j.molcel.2025.01.013 ]
- Small ribosomal subunit protein us17 (18 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Homo sapiens)
- 18s rrna (602 kDa, RNA from Homo sapiens)
- Small ribosomal subunit protein es6 (28 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es30 (6 kDa, Protein from Homo sapiens)
- Ubiquitylated 40s ribosome with riok3 (Complex from Homo sapiens)
- Small ribosomal subunit protein es26 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us13 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es10 (18 kDa, Protein from Homo sapiens)
- Serine/threonine-protein kinase rio3 (59 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es12 (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es1 (30 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us14 (6 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us10 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us19 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es4, x isoform (29 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es32 (3 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein rack1 (35 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us11 (16 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es8 (24 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us5 (31 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es28 (7 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es24 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es25 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es19 (16 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Ubiquitin (18 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us2 (32 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us4 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us12 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es17 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us15 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es21 (9 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es27 (9 kDa, Protein from Homo sapiens)
Cryo-EM structure of the human ubiquitylated pre-40S ribosome with RIOK3
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8zdc
Q-score: 0.368
Huang Z, Diehl FF, Wang M, Li Y, Song A, Chen FX, Rosa-Mercado NA, Beckmann R, Green R, Cheng J
Mol Cell (2025) [ Pubmed: 39947183 DOI: doi:10.1016/j.molcel.2025.01.013 ]
- Small ribosomal subunit protein us17 (18 kDa, Protein from Homo sapiens)
- Rna-binding protein nob1 (46 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es6 (28 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us13 (17 kDa, Protein from Homo sapiens)
- Ubiquitylated pre-40s ribosome with riok3 (Complex from Homo sapiens)
- Small ribosomal subunit protein es10 (18 kDa, Protein from Homo sapiens)
- Serine/threonine-protein kinase rio3 (59 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es12 (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es1 (30 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us14 (6 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us10 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us19 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es4, x isoform (29 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein rack1 (35 kDa, Protein from Homo sapiens)
- Protein ltv1 homolog (54 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us11 (16 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es8 (24 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us5 (31 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es28 (7 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es24 (15 kDa, Protein from Homo sapiens)
- Pre-rrna-processing protein tsr1 homolog (91 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es25 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es19 (16 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Small ribosomal subunit protein us2 (32 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us4 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us12 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es17 (15 kDa, Protein from Homo sapiens)
- 18s rrna (604 kDa, RNA from Homo sapiens)
- Small ribosomal subunit protein us15 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es21 (9 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es27 (9 kDa, Protein from Homo sapiens)
- Rna-binding protein pno1 (27 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
Cryo-EM structure of the human ubiquitylated pre-40S ribosome with RIOK3 (without NOB1)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8zdd
Q-score: 0.396
Huang Z, Diehl FF, Wang M, Li Y, Song A, Chen FX, Rosa-Mercado NA, Beckmann R, Green R, Cheng J
Mol Cell (2025) [ Pubmed: 39947183 DOI: doi:10.1016/j.molcel.2025.01.013 ]
- Small ribosomal subunit protein us17 (18 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es6 (28 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us13 (17 kDa, Protein from Homo sapiens)
- Ubiquitylated pre-40s ribosome with riok3 (Complex from Homo sapiens)
- Small ribosomal subunit protein es10 (18 kDa, Protein from Homo sapiens)
- Serine/threonine-protein kinase rio3 (59 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es12 (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es1 (30 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us14 (6 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us10 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us19 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es4, x isoform (29 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein rack1 (35 kDa, Protein from Homo sapiens)
- Protein ltv1 homolog (54 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us11 (16 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es8 (24 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us5 (31 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es28 (7 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es24 (15 kDa, Protein from Homo sapiens)
- Pre-rrna-processing protein tsr1 homolog (91 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es25 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es19 (16 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Small ribosomal subunit protein us2 (32 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us4 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us12 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es17 (15 kDa, Protein from Homo sapiens)
- 18s rrna (604 kDa, RNA from Homo sapiens)
- Small ribosomal subunit protein us15 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es21 (9 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es27 (9 kDa, Protein from Homo sapiens)
- Rna-binding protein pno1 (27 kDa, Protein from Homo sapiens)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
Cryo-EM structure of human uMtCK1 in complex with ADP and covalent inhibitor CKi
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 9b16
Q-score: 0.509
Demir M, Koepping L, Li Y, Fujimoto L, Bobkov A, Zhao J, Hitosugi T, Sergienko E
Structure (2025) [ Pubmed: 39904336 DOI: doi:10.1016/j.str.2025.01.008 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- (2s)-4-(chloroacetyl)-3,4-dihydro-2h-1,4-benzoxazine-2-carboxamide (254 Da, Ligand)
- Creatine kinase u-type, mitochondrial (47 kDa, Protein from Homo sapiens)
- Octameric u-type mitochondrial creatine kinase (Complex from Homo sapiens)