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)
Cryo-EM structure of Staphylococcus aureus 70S ribosome (strain 15B196) in complex with MCX-190.
Resolution: 2.58 Å
EM Method: Single-particle
Fitted PDBs: 8y38
Q-score: 0.537
Ma CX, Li Y, Liu WT, Li Y, Zhao F, Lian XT, Ding J, Liu SM, Liu XP, Fan BZ, Liu LY, Xue F, Li J, Zhang JR, Xue Z, Pei XT, Lin JZ, Liang JH
Cell Discov (2024) 10 pp. 75-75 [ Pubmed: 38992047 DOI: doi:10.1038/s41421-024-00702-y ]
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us7 (17 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul5 (19 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl27 (8 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us12 (16 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein bs16 (10 kDa, Protein from Staphylococcus aureus)
- Staphylococcus aureus 70s ribosome (strain 15b196) in complex with mcx-190. (Complex from Staphylococcus aureus)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul18 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us19 (12 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Staphylococcus aureus)
- Water (18 Da, Ligand)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Staphylococcus aureus)
- 16s ribosomal rna (500 kDa, RNA from Staphylococcus aureus)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Staphylococcus aureus)
- 5s ribosomal rna (36 kDa, RNA from Staphylococcus aureus)
- Small ribosomal subunit protein us14b (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl33b (5 kDa, Protein from Staphylococcus aureus)
- 23s ribosomal rna (946 kDa, RNA from Staphylococcus aureus)
- Small ribosomal subunit protein bs6 (11 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl31b (6 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Staphylococcus aureus)
- Magnesium ion (24 Da, Ligand)
- 7-[4-[3-[[(1~{s},2~{r},5~{r},6~{s},7~{s},8~{r},9~{r},11~{r},13~{r},14~{r})-8-[(2~{s},3~{r},4~{s},6~{r})-4-(dimethylamino)-6-methyl-3-oxidanyl-oxan-2-yl]oxy-2-ethyl-9-methoxy-1,5,7,9,11,13-hexamethyl-4,12,16-tris(oxidanylidene)-3,17-dioxa-15-azabicyclo[12.3.0]heptadecan-6-yl]oxycarbonylamino]propoxy]but-1-ynyl]-1-methyl-4-oxidanylidene-quinoline-3-carboxylic acid (969 Da, Ligand)
- Large ribosomal subunit protein ul3 (23 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us3 (24 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl32 (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl36 (4 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl28 (6 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us17 (10 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Staphylococcus aureus)
Cryo-EM structure of the human 40S ribosome with PDCD4
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8xxl
Q-score: 0.538
Ye X, Huang Z, Li Y, Wang M, Meng W, Miao M, Cheng J
Cell Res (2024) 34 pp. 522-525 [ Pubmed: 38641729 DOI: doi:10.1038/s41422-024-00962-z ]
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 40s ribosome with pdcd4 (Complex from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- Programmed cell death protein 4 (51 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- 18s rrna (602 kDa, RNA from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
Human N-type voltage gated calcium channel CaV2.2-alpha2/delta1-beta1 complex, apo state
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7vfs
Q-score: 0.533
Dong Y, Gao Y, Xu S, Wang Y, Yu Z, Li Y, Li B, Yuan T, Yang B, Zhang XC, Jiang D, Huang Z, Zhao Y
Cell Rep (2021) 37 pp. 109931-109931 [ DOI: doi:10.1016/j.celrep.2021.109931 Pubmed: 34731621 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Voltage-dependent l-type calcium channel subunit beta-1 (65 kDa, Protein from Homo sapiens)
- Cav2.2-alpha2delta1-beta1 complex (Complex 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)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Voltage-dependent n-type calcium channel subunit alpha-1b (262 kDa, Protein from Homo sapiens)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)