Structure of a human glycosylphosphatidylinositol (GPI) transamidase
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7w72
Q-score: 0.568
Zhang H, Su J, Li B, Gao Y, Liu M, He L, Xu H, Dong Y, Zhang XC, Zhao Y
Nat Struct Mol Biol (2022) 29 pp. 203-209 [ DOI: doi:10.1038/s41594-022-00726-6 Pubmed: 35165458 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Glycosylphosphatidylinositol anchor attachment 1 protein (67 kDa, Protein from Homo sapiens)
- Gpi transamidase component pig-s (59 kDa, Protein from Homo sapiens)
- Human glycosylphosphatidylinositol transamidase (Complex from Homo sapiens)
- Gpi transamidase component pig-t (60 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- [2-[[(2~{r})-2-hexanoyloxy-3-[(~{e})-hex-3-enoxy]propoxy]-oxidanyl-phosphoryl]oxy-3,4,5,6-tetrakis(oxidanyl)phenyl] (2~{e},4~{e})-hepta-2,4-dienoate (622 Da, Ligand)
- Gpi-anchor transamidase (45 kDa, Protein from Homo sapiens)
- Phosphatidylinositol glycan anchor biosynthesis class u protein (48 kDa, Protein from Homo sapiens)
DNQX-bound GluK2-1xNeto2 complex, with asymmetric LBD
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 7f56
Q-score: 0.309
He L, Sun J, Gao Y, Li B, Wang Y, Dong Y, An W, Li H, Yang B, Ge Y, Zhang XC, Shi YS, Zhao Y
Nature (2021) 599 pp. 325-329 [ DOI: doi:10.1038/s41586-021-03936-y Pubmed: 34552241 ]
- Dnqx-bound gluk2-1xneto2 complex, with asymmetric lbd (Complex from Rattus norvegicus)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Neuropilin and tolloid-like protein 2 (59 kDa, Protein from Rattus norvegicus)
Kainate-bound GluK2-1xNeto2 complex, at the desensitized state
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7f57
Q-score: 0.373
He L, Sun J, Gao Y, Li B, Wang Y, Dong Y, An W, Li H, Yang B, Ge Y, Zhang XC, Shi YS, Zhao Y
Nature (2021) 599 pp. 325-329 [ DOI: doi:10.1038/s41586-021-03936-y Pubmed: 34552241 ]
- Kainate-bound gluk2-1xneto2 complex, at the desensitized state (Complex from Rattus norvegicus)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- Neuropilin and tolloid-like protein 2 (59 kDa, Protein from Rattus norvegicus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
DNQX-bound GluK2-1xNeto2 complex
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7f59
Q-score: 0.311
He L, Sun J, Gao Y, Li B, Wang Y, Dong Y, An W, Li H, Yang B, Ge Y, Zhang XC, Shi YS, Zhao Y
Nature (2021) 599 pp. 325-329 [ DOI: doi:10.1038/s41586-021-03936-y Pubmed: 34552241 ]
- Neuropilin and tolloid-like protein 2 (59 kDa, Protein from Rattus norvegicus)
- Dnqx-bound gluk2-1xneto2 complex (Complex from Rattus norvegicus)
- (1s)-2-{[{[(2r)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (751 Da, Ligand)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
DNQX-bound GluK2-2xNeto2 complex
Resolution: 6.4 Å
EM Method: Single-particle
Fitted PDBs: 7f5a
Q-score: 0.171
He L, Sun J, Gao Y, Li B, Wang Y, Dong Y, An W, Li H, Yang B, Ge Y, Zhang XC, Shi YS, Zhao Y
Nature (2021) 599 pp. 325-329 [ DOI: doi:10.1038/s41586-021-03936-y Pubmed: 34552241 ]
- Structure of a complex (Complex from Rattus norvegicus)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Neuropilin and tolloid-like protein 2 (59 kDa, Protein from Rattus norvegicus)
LBD-TMD focused reconstruction of DNQX-bound GluK2-1xNeto2 complex
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7f5b
Q-score: 0.405
He L, Sun J, Gao Y, Li B, Wang Y, Dong Y, An W, Li H, Yang B, Ge Y, Zhang XC, Shi YS, Zhao Y
Nature (2021) 599 pp. 325-329 [ DOI: doi:10.1038/s41586-021-03936-y Pubmed: 34552241 ]
- Neuropilin and tolloid-like protein 2 (59 kDa, Protein from Rattus norvegicus)
- (1s)-2-{[{[(2r)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (751 Da, Ligand)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- Lbd-tmd focused reconstruction of dnqx-bound gluk2-1xneto2 complex (Complex from Rattus norvegicus)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
