The structure of type III CRISPR-associated deaminase in complex cA4
Resolution: 2.28 Å
EM Method: Single-particle
Fitted PDBs: 8z3r
Q-score: 0.605
Li Y, Li Z, Yan P, Hua C, Kong J, Wu W, Cui Y, Duan Y, Li S, Li G, Ji S, Chen Y, Zhao Y, Yang P, Hu C, Lu M, Chen M, Xiao Y
Science (2024) pp. eadr0393-eadr0393 [ DOI: doi:10.1126/science.adr0393 Pubmed: 39666823 ]
- Crispr-associated adenosine deaminase (Complex from Limisphaera ngatamarikiensis)
- Zinc ion (65 Da, Ligand)
- Adenosine deaminase domain-containing protein (70 kDa, Protein from Limisphaera ngatamarikiensis)
- 3'-o-[(r)-{[(2s,3as,4s,6s,6as)-6-(6-amino-9h-purin-9-yl)-2-hydroxy-2-oxotetrahydro-2h-2lambda~5~-furo[3,4-d][1,3,2]dioxaphosphol-4-yl]methoxy}(hydroxy)phosphoryl]adenosine (658 Da, Ligand)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9jm0
Q-score: 0.492
Wang Y, Wang C, Guan Z, Cao J, Xu J, Wang S, Cui Y, Wang Q, Chen Y, Yin Y, Zhang D, Liu H, Sun M, Jin S, Tao P, Zou T
Cell Rep (2024) 43 pp. 114857-114857 [ Pubmed: 39395169 DOI: doi:10.1016/j.celrep.2024.114857 ]
- Rna (82-mer) (26 kDa, RNA from Escherichia coli)
- Rna (5'-r(p*cp*gp*up*ap*ap*gp*gp*gp*up*gp*cp*gp*cp*a)-3') (4 kDa, RNA from Escherichia coli)
- Nicotinamide (122 Da, Ligand)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
- [(2r,3s,4r,5r)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl [hydroxy-[[(2r,3s,4r,5s)-3,4,5-trihydroxyoxolan-2-yl]methoxy]phosphoryl] hydrogen phosphate (559 Da, Ligand)
- Retron ec86 reverse transcriptase (37 kDa, Protein from Escherichia coli)
- Retron ec86-effector fiber (Complex from Escherichia coli)
- Retron ec86 putative ribosyltransferase/dna-binding protein (35 kDa, Protein from Escherichia coli)
CryoEM structure of human full-length alpha1beta3gamma2L GABA(A)R in complex with GABA and puerarin
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 9eqg
Q-score: 0.627
Lyu Q, Xue W, Liu R, Ma Q, Kasaragod VB, Sun S, Li Q, Chen Y, Yuan M, Yang Y, Zhang B, Nie A, Jia S, Shen C, Gao P, Rong W, Yu C, Bi Y, Zhang C, Nan F, Ning G, Rao Z, Yang X, Wang J, Wang W
Nature (2024) 634 pp. 936-943 [ Pubmed: 39261733 DOI: doi:10.1038/s41586-024-07929-5 ]
- Gamma-aminobutyric acid receptor subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Hexane (86 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 1,2-dilauroyl-sn-glycero-3-phosphate (535 Da, Ligand)
- Water (18 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Gamma-amino-butanoic acid (103 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit gamma-2 (56 kDa, Protein from Homo sapiens)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Hexadecane (226 Da, Ligand)
- Decane (142 Da, Ligand)
- (1r)-2-{[(s)-{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9z)-octadec-9-enoate (749 Da, Ligand)
- Puerarin (416 Da, Ligand)
- Cryoem structure of human full-length alpha1beta3gamma2l gaba(a)r in complex with gaba and puerarin (250 kDa, Complex from Homo sapiens)
- Chloride ion (35 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit alpha-1 (52 kDa, Protein from Homo sapiens)
Cryo-EM structure of human HCN3 channel in apo state
Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 8inz
Q-score: 0.526
Yu B, Lu Q, Li J, Cheng X, Hu H, Li Y, Che T, Hua Y, Jiang H, Zhang Y, Xian C, Yang T, Fu Y, Chen Y, Nan W, McCormick PJ, Xiong B, Duan J, Zeng B, Li Y, Fu Y, Zhang J
J Biol Chem (2024) 300 pp. 107288-107288 [ Pubmed: 38636662 DOI: doi:10.1016/j.jbc.2024.107288 ]
- 4-[[(2~{s},4~{a}~{r},6~{s},8~{a}~{s})-6-[(4~{s},5~{r})-4-[(2~{s})-butan-2-yl]-5,9-dimethyl-decyl]-4~{a}-methyl-2,3,4,5,6,7,8,8~{a}-octahydro-1~{h}-naphthalen-2-yl]oxy]-4-oxidanylidene-butanoic acid (492 Da, Ligand)
- Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 (86 kDa, Protein from Homo sapiens)
- Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 (Complex from Homo sapiens)
Rat Kir4.1 in complex with PIP2
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8i5m
Q-score: 0.486
Zhou X, Zhao C, Xu H, Xu Y, Zhan L, Wang P, He J, Lu T, Gu Y, Yang Y, Xu C, Chen Y, Liu Y, Zeng Y, Tian F, Chen Q, Xie X, Liu J, Hu H, Li J, Zheng Y, Guo J, Gao Z
Nat Chem Biol (2024) 20 pp. 857-866 [ DOI: doi:10.1038/s41589-024-01555-y Pubmed: 38355723 ]
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Atp-sensitive inward rectifier potassium channel 10 (38 kDa, Protein from Rattus norvegicus)
- Rat kir4.1 in complex with pip2 (Complex from Rattus norvegicus)
Rat Kir4.1 in complex with PIP2 and Lys05
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8i5n
Q-score: 0.414
Zhou X, Zhao C, Xu H, Xu Y, Zhan L, Wang P, He J, Lu T, Gu Y, Yang Y, Xu C, Chen Y, Liu Y, Zeng Y, Tian F, Chen Q, Xie X, Liu J, Hu H, Li J, Zheng Y, Guo J, Gao Z
Nat Chem Biol (2024) 20 pp. 857-866 [ DOI: doi:10.1038/s41589-024-01555-y Pubmed: 38355723 ]
- Rat kir4.1 in complex with pip2 and lys05 (Complex from Rattus norvegicus)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Atp-sensitive inward rectifier potassium channel 10 (38 kDa, Protein from Rattus norvegicus)
Cryo-EM structure of the alpha-carboxysome shell vertex from Prochlorococcus MED4
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 8wxb
Q-score: 0.337
Zhou RQ, Jiang YL, Li H, Hou P, Kong WW, Deng JX, Chen Y, Zhou CZ, Zeng Q
Nat Plants (2024) 10 pp. 661-672 [ DOI: doi:10.1038/s41477-024-01660-9 Pubmed: 38589484 ]
- Major carboxysome shell protein csos1 (10 kDa, Protein from Prochlorococcus sp. MED4)
- Carboxysome shell vertex protein csos4a (9 kDa, Protein from Prochlorococcus sp. MED4)
- The shell vertex of alpha-carboxysome (3 MDa, Complex from Prochlorococcus sp. MED4)
- Carboxysome assembly protein csos2 (82 kDa, Protein from Prochlorococcus sp. MED4)
Cryo-EM structure of human BTR1 in the outward-facing state.
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 7x1i
Q-score: 0.578
Lu Y, Zuo P, Chen H, Shan H, Wang W, Dai Z, Xu H, Chen Y, Liang L, Ding D, Jin Y, Yin Y
Nat Commun (2023) 14 pp. 6157-6157 [ Pubmed: 37788993 DOI: doi:10.1038/s41467-023-41924-0 ]
- Isoform 1 of solute carrier family 4 member 11 (99 kDa, Protein from Homo sapiens)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Solute carrier family 4 member 11, isoform b (199 kDa, Complex from Homo sapiens)
Cryo-EM structure of human BTR1 in the outward-facing state in the presence of NH4Cl.
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 7x1j
Q-score: 0.572
Lu Y, Zuo P, Chen H, Shan H, Wang W, Dai Z, Xu H, Chen Y, Liang L, Ding D, Jin Y, Yin Y
Nat Commun (2023) 14 pp. 6157-6157 [ Pubmed: 37788993 DOI: doi:10.1038/s41467-023-41924-0 ]
- Isoform 1 of solute carrier family 4 member 11 (99 kDa, Protein from Homo sapiens)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Solute carrier family 4 member 11, isoform b (199 kDa, Complex from Homo sapiens)
Cryo-EM structure of C22:0-CoA bound human very long-chain fatty acid ABC transporter ABCD1
Resolution: 3.59 Å
EM Method: Single-particle
Fitted PDBs: 7vzb
Q-score: 0.429
Chen ZP, Xu D, Wang L, Mao YX, Li Y, Cheng MT, Zhou CZ, Hou WT, Chen Y
Nat Commun (2022) 13 pp. 3299-3299 [ DOI: doi:10.1038/s41467-022-30974-5 Pubmed: 35676282 ]
- Cholesterol hemisuccinate (486 Da, Ligand)
- Human peroxisomal abcd1 (175 MDa, Cellular component from Caenorhabditis elegans)
- Peroxisomal membrane protein related,atp-binding cassette sub-family d member 1 (87 kDa, Protein from Homo sapiens)
- S-[2-[3-[[(2r)-4-[[[(2r,3s,4r,5r)-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl] docosanethioate (1 kDa, Ligand)