Structure of LAT1-CD98hc-Fab170 in complex with BCH, consensus map
Resolution: 3.68 Å
EM Method: Single-particle
Fitted PDBs: 8kdg
Q-score: 0.424
Lee Y, Jin C, Ohgaki R, Xu M, Ogasawara S, Warshamanage R, Yamashita K, Murshudov G, Nureki O, Murata T, Kanai Y
Nat Commun (2025) 16 pp. 1635-1635 [ Pubmed: 39952931 DOI: doi:10.1038/s41467-025-56903-w ]
- Fab170 (Complex from Mus musculus)
- Fab170 light chain (24 kDa, Protein from Mus musculus)
- (1~{s},2~{r},4~{r})-2-azanylbicyclo[2.2.1]heptane-2-carboxylic acid (155 Da, Ligand)
- 4f2 cell-surface antigen heavy chain (68 kDa, Protein from Homo sapiens)
- Lat1-cd98hc-fab170 (173 kDa, Complex)
- Fab170 heavy chain (24 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Lat1-cd98hc (Complex from Homo sapiens)
- Large neutral amino acids transporter small subunit 1 (56 kDa, Protein from Homo sapiens)
Structure of LAT1-CD98hc in complex with BCH, focused on TMD
Resolution: 3.78 Å
EM Method: Single-particle
Fitted PDBs: 8kdh
Q-score: 0.45
Lee Y, Jin C, Ohgaki R, Xu M, Ogasawara S, Warshamanage R, Yamashita K, Murshudov G, Nureki O, Murata T, Kanai Y
Nat Commun (2025) 16 pp. 1635-1635 [ Pubmed: 39952931 DOI: doi:10.1038/s41467-025-56903-w ]
- 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (760 Da, Ligand)
- (1~{s},2~{r},4~{r})-2-azanylbicyclo[2.2.1]heptane-2-carboxylic acid (155 Da, Ligand)
- 4f2 cell-surface antigen heavy chain (68 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Large neutral amino acids transporter small subunit 1 (56 kDa, Protein from Homo sapiens)
- Lat1-cd98hc-fab170 (173 kDa, Complex from Homo sapiens)
CryoEM structure of influenza A RNP-like particle single-stranded assembled with a 12-mer RNA.
Resolution: 3.32 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gan
Q-score: 0.493
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Rna (5'-p(uc)6-fam3') (3 kDa, RNA from synthetic construct)
- Complex np-rna (Complex from Influenza A virus)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
Resolution: 3.08 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gas
Q-score: 0.531
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Complex np-rna (Complex)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- Rna (Complex from synthetic construct)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
- Rna (5'-p(uc)9-fam3') (5 kDa, RNA from synthetic construct)
- Nucleoprotein (Complex from Influenza A virus)
Resolution: 3.2 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gat
Q-score: 0.437
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Complex np-rna (Complex)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- Rna (Complex from synthetic construct)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
- Rna (5'-p(uc)9-fam3') (5 kDa, RNA from synthetic construct)
- Nucleoprotein (Complex from Influenza A virus)
Resolution: 3.04 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gav
Q-score: 0.518
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Complex np-rna (Complex)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- Rna (Complex from synthetic construct)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
- Rna (5'-p(uc)9-fam3') (5 kDa, RNA from synthetic construct)
- Nucleoprotein (Complex from Influenza A virus)
Tp-PSI-FCPI-S in Thalassiosira pseudonana
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8zet
Q-score: 0.485
Feng Y, Li Z, Yang Y, Shen L, Li X, Liu X, Zhang X, Zhang J, Ren F, Wang Y, Liu C, Han G, Wang X, Kuang T, Shen JR, Wang W
J Integr Plant Biol (2024) [ Pubmed: 39670505 DOI: doi:10.1111/jipb.13816 ]
- Tp-psar (9 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Beta-carotene (536 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i iron-sulfur center (8 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Pt17531-like protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (1~{r})-3,5,5-trimethyl-4-[(1~{e},3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e})-3,7,12,16-tetramethyl-18-[(4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15-octaen-17-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (3s,3'r,5r,6s,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol (582 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Tp-redcap (20 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ii (14 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein, major type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Photosystem i reaction center subunit psa29 (13 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chlorophyll a/c-binding protein lhcq8 (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Phylloquinone (450 Da, Ligand)
- Tp-psi-fcpi-s (Complex from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit xi (15 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Iron/sulfur cluster (351 Da, Ligand)
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- Chlorophyll c1 (610 Da, Ligand)
- Photosystem i reaction center subunit iii (17 kDa, Protein from Thalassiosira pseudonana CCMP1335)
Cryo-EM structure of the dystrophin glycoprotein complex
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8yt8
Q-score: 0.412
Wan L, Ge X, Xu Q, Huang G, Yang T, Campbell KP, Yan Z, Wu J
Nature (2025) 637 pp. 1252-1260 [ Pubmed: 39663450 DOI: doi:10.1038/s41586-024-08310-2 ]
- Unknown segment (559 Da, Protein from Mus musculus)
- Gamma-sarcoglycan (28 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Dystrobrevin alpha (23 kDa, Protein from Mus musculus)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Beta-dystroglycan (31 kDa, Protein from Mus musculus)
- Calcium ion (40 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dystrophin glycoprotein complex, dgc (Complex from Mus musculus)
- Delta-sarcoglycan (29 kDa, Protein from Mus musculus)
- Beta-sarcoglycan (28 kDa, Protein from Mus musculus)
- Cholesterol (386 Da, Ligand)
- Sarcospan (19 kDa, Protein from Mus musculus)
- Alpha-sarcoglycan (32 kDa, Protein from Mus musculus)
- Dystrophin (38 kDa, Protein from Mus musculus)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 9h9e
Q-score: 0.372
Hooda Y, Sente A, Judy RM, Smalinskaite L, Chew SP, Naydenova K, Malinauskas T, Hardwick SW, Chirgadze DY, Aricescu AR, Hegde RS
bioRxiv (2024) [ DOI: doi:10.1101/2024.10.28.620708 Pubmed: 39553992 ]
- 1,2-dipalmitoyl-sn-glycero-3-phosphate (647 Da, Ligand)
- Complex of gamma-aminobutyric acid receptor subunit alpha-1 with assembly factor nacho/tmem35a (Complex from Homo sapiens)
- Novel acetylcholine receptor chaperone (20 kDa, Protein from Homo sapiens)
- (7s)-4-hydroxy-n,n,n-trimethyl-9-oxo-7-[(palmitoyloxy)methyl]-3,5,8-trioxa-4-phosphahexacosan-1-aminium 4-oxide (763 Da, Ligand)
- (1s)-2-{[{[(2r)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (751 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit alpha-1 (54 kDa, Protein from Homo sapiens)
Cryo-EM structure of the FB1-bound Lac1-Lip1 complex
Resolution: 3.07 Å
EM Method: Single-particle
Fitted PDBs: 8y2m
Q-score: 0.499
Zhang Z, Fang Q, Xie T, Gong X
Structure (2024) 32 pp. 1419-1428.e4 [ Pubmed: 38964337 DOI: doi:10.1016/j.str.2024.06.002 ]
- Ceramide synthase subunit lip1 (17 kDa, Protein from Saccharomyces cerevisiae S288C)
- Fb1-bound lac1-lip1 complex (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Hexacosanoic acid (396 Da, Ligand)
- Ceramide synthase lac1 (50 kDa, Protein from Saccharomyces cerevisiae S288C)
- (2~{r})-2-[2-[(5~{r},6~{r},7~{s},9~{s},11~{r},16~{r},18~{s},19~{s})-19-azanyl-6-[(3~{r})-3-carboxy-5-oxidanyl-5-oxidanylidene-pentanoyl]oxy-5,9-dimethyl-11,16,18-tris(oxidanyl)icosan-7-yl]oxy-2-oxidanylidene-ethyl]butanedioic acid (721 Da, Ligand)
- (4s,7r)-4-hydroxy-n,n,n-trimethyl-9-oxo-7-[(palmitoyloxy)methyl]-3,5,8-trioxa-4-phosphahexacosan-1-aminium 4-oxide (763 Da, Ligand)