Caenorhabditis elegans Otopetrin 8 (CeOtop8) in pH 8.0
Gan N, Zeng W, Han Y, Chen Q, Jiang Y
Nat Commun (2024) 15 pp. 7250-7250 [ Pubmed: 39179582 DOI: doi:10.1038/s41467-024-51803-x ]
- Ceotop8 (Complex from Caenorhabditis elegans)
- Otopetrin-2 (69 kDa, Protein from Caenorhabditis elegans)
Caenorhabditis elegans Otopetrin 8 (CeOtop8) in pH 5.0
Gan N, Zeng W, Han Y, Chen Q, Jiang Y
Nat Commun (2024) 15 pp. 7250-7250 [ Pubmed: 39179582 DOI: doi:10.1038/s41467-024-51803-x ]
- Ceotop8 (Complex from Caenorhabditis elegans)
- Otopetrin-2 (69 kDa, Protein from Caenorhabditis elegans)
Cryo-EM structure of Caenorhabditis elegans DPF-3 (apo)
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8pba
Q-score: 0.526
Gudipati RK, Gaidatzis D, Seebacher J, Muehlhaeusser S, Kempf G, Cavadini S, Hess D, Soneson C, Grosshans H
Mol.Syst.Biol. (2024) 20 pp. 1303-1328 [ Pubmed: 39468329 DOI: doi:10.1038/s44320-024-00071-4 ]
Resolution: 2.21 Å
EM Method: Single-particle
Fitted PDBs: 8xbs
Q-score: 0.663
Wang R, Cong Y, Qian D, Yan C, Gong D
Nucleic Acids Res (2024) 52 pp. 6718-6727 [ Pubmed: 38742627 DOI: doi:10.1093/nar/gkae395 ]
- Dimer of sid1 (Complex from Caenorhabditis elegans)
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Systemic rna interference defective protein 1 (90 kDa, Protein from Caenorhabditis elegans)
- Cholesterol (386 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Cryo-EM structure of DRH-1 helicase and C-terminal domain bound to dsRNA
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8t5s
Q-score: 0.428
Consalvo CD, Aderounmu AM, Donelick HM, Aruscavage PJ, Eckert DM, Shen PS, Bass BL
eLife (2024) 13 [ Pubmed: 38747717 DOI: doi:10.7554/eLife.93979 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Drh-1 helicase and ctd bound to dsrna (Complex from Caenorhabditis elegans)
- Rna (30-mer) (9 kDa, RNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dicer-related helicase (125 kDa, Protein from Caenorhabditis elegans)
- Rna (30-mer) (9 kDa, RNA from synthetic construct)
cryo-EM structure of the CED-4/CED-3 holoenzyme
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8jol
Q-score: 0.325
Life Sci Alliance (2023) 6 [ DOI: doi:10.26508/lsa.202302056 Pubmed: 37402593 ]
- Ternary complex of ced-4 with ced-3 card and ced-3 catalytic domain (Complex from Caenorhabditis elegans)
- Cell death protein 3 (56 kDa, Protein from Caenorhabditis elegans)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Cell death protein 4 (62 kDa, Protein from Caenorhabditis elegans)
Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 7zlg
Q-score: 0.454
Bloch JS, John A, Mao R, Mukherjee S, Boilevin J, Irobalieva RN, Darbre T, Scott NE, Reymond JL, Kossiakoff AA, Goddard-Borger ED, Locher KP
Nat Chem Biol (2023) 19 pp. 575-584 [ Pubmed: 36604564 DOI: doi:10.1038/s41589-022-01219-9 ]
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- Synthetic octapeptide wehi 1886493 (821 Da, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
- C-mannosyltransferase cedpy19, in complex with acceptor peptide and bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
- Water (18 Da, Ligand)
Resolution: 2.75 Å
EM Method: Single-particle
Fitted PDBs: 7zlh
Q-score: 0.455
Bloch JS, John A, Mao R, Mukherjee S, Boilevin J, Irobalieva RN, Darbre T, Scott NE, Reymond JL, Kossiakoff AA, Goddard-Borger ED, Locher KP
Nat Chem Biol (2023) 19 pp. 575-584 [ Pubmed: 36604564 DOI: doi:10.1038/s41589-022-01219-9 ]
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
- Water (18 Da, Ligand)
- C-mannosyltransferase cedpy19, in apo state, bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 7zli
Q-score: 0.496
Bloch JS, John A, Mao R, Mukherjee S, Boilevin J, Irobalieva RN, Darbre T, Scott NE, Reymond JL, Kossiakoff AA, Goddard-Borger ED, Locher KP
Nat Chem Biol (2023) 19 pp. 575-584 [ Pubmed: 36604564 DOI: doi:10.1038/s41589-022-01219-9 ]
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
- C-mannosyltransferase cedpy19, in complex with dol25-p-man and bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
- [(2~{s},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl] [(3~{s},6~{z},10~{e},14~{e})-3,7,11,15,19-pentamethylicosa-6,10,14,18-tetraenyl] hydrogen phosphate (602 Da, Ligand)
- Water (18 Da, Ligand)
Resolution: 3.63 Å
EM Method: Single-particle
Fitted PDBs: 7zlj
Q-score: 0.411
Bloch JS, John A, Mao R, Mukherjee S, Boilevin J, Irobalieva RN, Darbre T, Scott NE, Reymond JL, Kossiakoff AA, Goddard-Borger ED, Locher KP
Nat Chem Biol (2023) 19 pp. 575-584 [ Pubmed: 36604564 DOI: doi:10.1038/s41589-022-01219-9 ]
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
- [(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]methyl-[(3~{s},6~{e},10~{z},14~{e})-3,7,11,15,19-pentamethylicosa-6,10,14,18-tetraenoxy]phosphinic acid (600 Da, Ligand)
- Synthetic octapeptide wehi 1886493 (821 Da, Protein from synthetic construct)
- C-mannosyltransferase cedpy19, in ternary complex with dol25-p-c-man and acceptor peptide, bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
- Water (18 Da, Ligand)