Structure of KefC Asp156Asn variant
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 9emb
Q-score: 0.524
To Be Published
- (1r)-2-{[(s)-{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9z)-octadec-9-enoate (749 Da, Ligand)
- Adenosine monophosphate (347 Da, Ligand)
- Glutathione-regulated potassium-efflux system protein kefc (61 kDa, Protein from Escherichia coli)
- Homodimer of kefc asp156asn variant (Complex from Escherichia coli)
Cryo-EM structure of DiCas7-11 in complex with crRNA
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8wm4
Q-score: 0.435
Hong T, Luo Q, Ma H, Wang X, Li X, Shen C, Pang J, Wang Y, Chen Y, Zhang C, Su Z, Dong H, Tang X
Signal Transduct Target Ther (2024) 9 pp. 111-111 [ Pubmed: 38735995 DOI: doi:10.1038/s41392-024-01821-4 ]
- Zinc ion (65 Da, Ligand)
- Crrna (38-mer) (12 kDa, RNA from Escherichia coli)
- Binary complex of cas7-11 and crrna (Complex from Escherichia coli)
- Crispr-associated ramp family protein (183 kDa, Protein from Desulfonema ishimotonii)
Cryo-EM structure of DiCas7-11-crRNA in complex with regulator
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8wmc
Q-score: 0.538
Hong T, Luo Q, Ma H, Wang X, Li X, Shen C, Pang J, Wang Y, Chen Y, Zhang C, Su Z, Dong H, Tang X
Signal Transduct Target Ther (2024) 9 pp. 111-111 [ Pubmed: 38735995 DOI: doi:10.1038/s41392-024-01821-4 ]
- Ternary complex of cas7-11_crrna_tpr-chat (Complex from Escherichia coli)
- Chat domain-containing protein (88 kDa, Protein from Desulfonema ishimotonii)
- Crispr-associated ramp family protein (183 kDa, Protein from Desulfonema ishimotonii)
- Zinc ion (65 Da, Ligand)
- Rna (38-mer) (12 kDa, RNA from Escherichia coli)
Cryo-EM structure of DiCas7-11 mutant in complex with crRNA
Resolution: 3.53 Å
EM Method: Single-particle
Fitted PDBs: 8wmi
Q-score: 0.426
Hong T, Luo Q, Ma H, Wang X, Li X, Shen C, Pang J, Wang Y, Chen Y, Zhang C, Su Z, Dong H, Tang X
Signal Transduct Target Ther (2024) 9 pp. 111-111 [ Pubmed: 38735995 DOI: doi:10.1038/s41392-024-01821-4 ]
- Zinc ion (65 Da, Ligand)
- Crrna (39-mer) (12 kDa, RNA from Escherichia coli)
- Crispr-associated ramp family protein (183 kDa, Protein from Desulfonema ishimotonii)
- Binary complex of dicas7-11 mutant with crrna (Complex from Escherichia coli)
Cryo-EM structure of Cas7-11-crRNA bound to N-terminal of TPR-CHAT
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8wml
Q-score: 0.522
Hong T, Luo Q, Ma H, Wang X, Li X, Shen C, Pang J, Wang Y, Chen Y, Zhang C, Su Z, Dong H, Tang X
Signal Transduct Target Ther (2024) 9 pp. 111-111 [ Pubmed: 38735995 DOI: doi:10.1038/s41392-024-01821-4 ]
- Chat domain-containing protein (7 kDa, Protein from Desulfonema ishimotonii)
- Crispr-associated ramp family protein (183 kDa, Protein from Desulfonema ishimotonii)
- Ternary complex of cas7-11-crrna bound to n-terminal of tpr-chat (Complex from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Crrna (38-mer) (12 kDa, RNA from Escherichia coli)
E167K RF2 on E. coli 70S release complex with UGG (Structure I)
Pundir S, Larsson DSD, Selmer M, Sanyal S
To Be Published
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Ribosome release complex (2 MDa, Complex from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- Peptide chain release factor rf2 (41 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Spermine (202 Da, Ligand)
- Small ribosomal subunit protein bs16 (9 kDa, Protein from Escherichia coli)
- Trna(fmet) (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 1,4-diaminobutane (88 Da, Ligand)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- Spermidine (145 Da, Ligand)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- Mrna (15 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
E167K RF2 on E. coli 70S release complex with UGG (Structure II)
Resolution: 2.78 Å
EM Method: Single-particle
Fitted PDBs: 8p17
Q-score: 0.545
Pundir S, Larsson DSD, Selmer M, Sanyal S
To Be Published
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Ribosome release complex (2 MDa, Complex from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 16s rna (499 kDa, RNA from Escherichia coli)
- Peptide chain release factor rf2 (41 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Spermine (202 Da, Ligand)
- Small ribosomal subunit protein bs16 (9 kDa, Protein from Escherichia coli)
- Trna(fmet) (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 1,4-diaminobutane (88 Da, Ligand)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- Spermidine (145 Da, Ligand)
- Mrna (15 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
E167K RF2 on E. coli 70S release complex with UGG (Structure III)
Pundir S, Larsson DSD, Selmer M, Sanyal S
To Be Published
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Ribosome release complex (2 MDa, Complex from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- Peptide chain release factor rf2 (41 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Spermine (202 Da, Ligand)
- Small ribosomal subunit protein bs16 (9 kDa, Protein from Escherichia coli)
- Trna(fmet) (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 1,4-diaminobutane (88 Da, Ligand)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- Spermidine (145 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- Mrna (15 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
Vilazodone-bound serotonin 1A (5-HT1A) receptor-Gi1 protein complex
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 8fyl
Q-score: 0.525
Warren AL, Lankri D, Cunningham MJ, Serrano IC, Parise LF, Kruegel AC, Duggan P, Zilberg G, Capper MJ, Havel V, Russo SJ, Sames D, Wacker D
Nature (2024) 630 pp. 237-246 [ Pubmed: 38720072 DOI: doi:10.1038/s41586-024-07403-2 ]
- Cholesterol hemisuccinate (486 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (8 kDa, Protein from Homo sapiens)
- Serotonin 1a (5-ht1a) receptor-gi1 protein complex (Complex from Escherichia coli, Homo sapiens)
- Soluble cytochrome b562,5-hydroxytryptamine receptor 1a,5-hydroxytryptamine receptor 1a (61 kDa, Protein from Homo sapiens)
- 5-{4-[4-(5-cyano-1h-indol-3-yl)butyl]piperazin-1-yl}-1-benzofuran-2-carboxamide (441 Da, Ligand)
- [(2r)-1-[oxidanyl-[(2r,3r,5s,6r)-2,3,5,6-tetrakis(oxidanyl)-4-phosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-3-tetradecanoyloxy-propan-2-yl] (5e,8e)-hexadeca-5,8,11,14-tetraenoate (854 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
LSD-bound serotonin 1A (5-HT1A) receptor-Gi1 protein complex
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8fyt
Q-score: 0.544
Warren AL, Lankri D, Cunningham MJ, Serrano IC, Parise LF, Kruegel AC, Duggan P, Zilberg G, Capper MJ, Havel V, Russo SJ, Sames D, Wacker D
Nature (2024) 630 pp. 237-246 [ Pubmed: 38720072 DOI: doi:10.1038/s41586-024-07403-2 ]
- Cholesterol hemisuccinate (486 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (8 kDa, Protein from Homo sapiens)
- Serotonin 1a (5-ht1a) receptor-gi1 protein complex (Complex from Escherichia coli, Homo sapiens)
- Soluble cytochrome b562,5-hydroxytryptamine receptor 1a,5-hydroxytryptamine receptor 1a (61 kDa, Protein from Homo sapiens)
- (8alpha)-n,n-diethyl-6-methyl-9,10-didehydroergoline-8-carboxamide (323 Da, Ligand)
- [(2r)-1-[oxidanyl-[(2r,3r,5s,6r)-2,3,5,6-tetrakis(oxidanyl)-4-phosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-3-tetradecanoyloxy-propan-2-yl] (5e,8e)-hexadeca-5,8,11,14-tetraenoate (854 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)