Cryo-EM structure of RNA device 43, holo state
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 8t5o
Q-score: 0.504
Stagno JR, Deme JC, Lee Y-T, Wang Y-X, Lea SM
To Be Published
- Tetracycline (444 Da, Ligand)
- Synthetic rna device containing hammerhead ribozyme and tetracycline-binding aptamer (40 kDa, Complex from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Rna device 43 (40 kDa, RNA from synthetic construct)
Cryo-EM structure of RNA device 43, apo state
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8tkj
Q-score: 0.426
Stagno JR, Deme JC, Lee Y-T, Wang Y-X, Lea SM
To Be Published
- Magnesium ion (24 Da, Ligand)
- Synthetic rna device containing hammerhead ribozyme and tetracycline-binding aptamer (40 kDa, Complex from synthetic construct)
- Rna device 43 (40 kDa, RNA from synthetic construct)
Cryo-EM structure of RNA device 43 truncation mutant 3 (U100C), apo state
Resolution: 3.37 Å
EM Method: Single-particle
Fitted PDBs: 8tkk
Q-score: 0.415
Stagno JR, Deme JC, Lee Y-T, Wang Y-X, Lea SM
To Be Published
- Magnesium ion (24 Da, Ligand)
- Synthetic rna device containing hammerhead ribozyme and tetracycline-binding aptamer (35 kDa, Complex from synthetic construct)
- Rna device 43 truncation mutant 3 (u100c) (34 kDa, RNA from synthetic construct)
- Guanosine-5'-triphosphate (523 Da, Ligand)
Cryo-EM structure of a type II ZorAB complex from Sulfuricurvum kujiense
Cryo-EM structure of a type I ZorAB complex from Shewanella sp. strain ANA-3, composite map
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 8vvn
Q-score: 0.595
Mariano G, Deme JC, Blower TR, Palmer T, Lea SM
Nat Commun (2025) [ ]
- Sodium ion (22 Da, Ligand)
- Mota/tolq/exbb proton channel domain-containing protein (77 kDa, Protein from Shewanella sp. ANA-3)
- Chemotaxis protein motb-related protein (32 kDa, Protein from Shewanella sp. ANA-3)
- Water (18 Da, Ligand)
- Zorab complex (Complex from Shewanella sp. ANA-3)
Cryo-EM structure of the mammalian peptide transporter PepT2 bound to cefadroxil
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9bir
Q-score: 0.549
Parker JL, Deme JC, Lichtinger SM, Kuteyi G, Biggin PC, Lea SM, Newstead S
Nat Commun (2024) 15 pp. 8755-8755 [ DOI: doi:10.1038/s41467-024-53096-6 Pubmed: 39384780 ]
- Nanobody (Complex from Lama glama)
- Complex of the mammalian peptide transporter pept2 with nanobody and bound cefadroxil (Complex from Rattus norvegicus)
- Pept2 (Complex from Rattus norvegicus)
- Nanobody (14 kDa, Protein from Lama glama)
- Solute carrier family 15 member 2 (82 kDa, Protein from Rattus norvegicus)
- Cefadroxil (363 Da, Ligand)
Cryo-EM structure of the mammalian peptide transporter PepT2 bound to amoxicillin
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9bis
Q-score: 0.523
Parker JL, Deme JC, Lichtinger SM, Kuteyi G, Biggin PC, Lea SM, Newstead S
Nat Commun (2024) 15 pp. 8755-8755 [ DOI: doi:10.1038/s41467-024-53096-6 Pubmed: 39384780 ]
- Nanobody (Complex from Lama glama)
- Complex of the mammalian peptide transporter pept2 with nanobody and bound amoxicillin (Complex from Rattus norvegicus)
- Pept2 (Complex from Rattus norvegicus)
- 2-{1-[2-amino-2-(4-hydroxy-phenyl)-acetylamino]-2-oxo-ethyl}-5,5-dimethyl-thiazolidine-4-carboxylic acid (367 Da, Ligand)
- Nanobody (14 kDa, Protein from Lama glama)
- Solute carrier family 15 member 2 (82 kDa, Protein from Rattus norvegicus)
Cryo-EM structure of the mammalian peptide transporter PepT2 bound to cloxacillin, pose 1
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9bit
Q-score: 0.539
Parker JL, Deme JC, Lichtinger SM, Kuteyi G, Biggin PC, Lea SM, Newstead S
Nat Commun (2024) 15 pp. 8755-8755 [ DOI: doi:10.1038/s41467-024-53096-6 Pubmed: 39384780 ]
- Complex of the mammalian peptide transporter pept2 with nanobody and bound cloxacillin, pose 1 (Complex from Rattus norvegicus)
- Nanobody (Complex from Lama glama)
- Cloxacillin (435 Da, Ligand)
- Pept2 (Complex from Rattus norvegicus)
- Nanobody (14 kDa, Protein from Lama glama)
- Solute carrier family 15 member 2 (82 kDa, Protein from Rattus norvegicus)
Cryo-EM structure of the mammalian peptide transporter PepT2 bound to cloxacillin, pose 2
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9biu
Q-score: 0.548
Parker JL, Deme JC, Lichtinger SM, Kuteyi G, Biggin PC, Lea SM, Newstead S
Nat Commun (2024) 15 pp. 8755-8755 [ DOI: doi:10.1038/s41467-024-53096-6 Pubmed: 39384780 ]
- Nanobody (Complex from Lama glama)
- Cloxacillin (435 Da, Ligand)
- Pept2 (Complex from Rattus norvegicus)
- Nanobody (14 kDa, Protein from Lama glama)
- Solute carrier family 15 member 2 (82 kDa, Protein from Rattus norvegicus)
- Complex of the mammalian peptide transporter pept2 with nanobody and bound cloxacillin, pose 2 (Complex from Rattus norvegicus)
The Type 9 Secretion System in vitro assembled, RemA-CTD substrate bound complex
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8gl6
Q-score: 0.524
Lauber F, Deme JC, Liu X, Kjaer A, Miller HL, Alcock F, Lea SM, Berks BC
Nat Microbiol (2024) [ ]
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Type 9 secretion system extended translocon (Complex from Flavobacterium johnsoniae UW101)
- Protein involved in gliding motility spra (270 kDa, Protein from Flavobacterium johnsoniae)
- Peptidyl-prolyl cis-trans isomerase (19 kDa, Protein from Flavobacterium johnsoniae)
- Rema (154 kDa, Protein from Flavobacterium johnsoniae)
- Type ix secretion system protein porv domain-containing protein (44 kDa, Protein from Flavobacterium johnsoniae)