Cryo-EM structure of a eukaryotic ZnT8 in the presence of zinc
Resolution: 3.85 Å
EM Method: Single-particle
Fitted PDBs: 7y5g
Q-score: 0.438
Zhang S, Fu C, Luo Y, Xie Q, Xu T, Sun Z, Su Z, Zhou X
J Struct Biol (2022) 215 pp. 107926-107926 [ DOI: doi:10.1016/j.jsb.2022.107926 Pubmed: 36464198 ]
- Zinc transporter 8 (41 kDa, Protein from Xenopus tropicalis)
- Xtznt8 dimer complexed with zinc (Complex from Xenopus tropicalis)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of a eukaryotic ZnT8 at a low pH
Resolution: 3.72 Å
EM Method: Single-particle
Fitted PDBs: 7y5h
Q-score: 0.442
Zhang S, Fu C, Luo Y, Xie Q, Xu T, Sun Z, Su Z, Zhou X
J Struct Biol (2022) 215 pp. 107926-107926 [ DOI: doi:10.1016/j.jsb.2022.107926 Pubmed: 36464198 ]
- Zinc transporter 8 (41 kDa, Protein from Xenopus tropicalis)
- Xtznt8 dimer complexed with zinc and proton (Complex from Xenopus tropicalis)
- Zinc ion (65 Da, Ligand)
Cytochrome c-type biogenesis protein CcmABCD from E. coli in complex with ANP
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 7f03
Q-score: 0.498
Li J, Zheng W, Gu M, Han L, Luo Y, Yu K, Sun M, Zong Y, Ma X, Liu B, Lowder EP, Mendez DL, Kranz RG, Zhang K, Zhu J
Nat Commun (2022) 13 pp. 6422-6422 [ Pubmed: 36307425 DOI: doi:10.1038/s41467-022-34136-5 ]
- Cytochrome c-type biogenesis protein ccmabcd (130 kDa, Complex from Escherichia coli BL21(DE3))
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Water (18 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Heme exporter protein b (23 kDa, Protein from Escherichia coli BL21(DE3))
- Cytochrome c biogenesis atp-binding export protein ccma (23 kDa, Protein from Escherichia coli BL21(DE3))
- Heme exporter protein d (7 kDa, Protein from Escherichia coli BL21(DE3))
- Heme exporter protein c (27 kDa, Protein from Escherichia coli BL21(DE3))
Cytochrome c-type biogenesis protein CcmABCD from E. coli in complex with Heme and ATP.
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 7f04
Q-score: 0.561
Li J, Zheng W, Gu M, Han L, Luo Y, Yu K, Sun M, Zong Y, Ma X, Liu B, Lowder EP, Mendez DL, Kranz RG, Zhang K, Zhu J
Nat Commun (2022) 13 pp. 6422-6422 [ Pubmed: 36307425 DOI: doi:10.1038/s41467-022-34136-5 ]
- Cytochrome c-type biogenesis protein ccmabcd (130 kDa, Complex from Escherichia coli BL21(DE3))
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Water (18 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Heme exporter protein b (23 kDa, Protein from Escherichia coli BL21(DE3))
- Cytochrome c biogenesis atp-binding export protein ccma (23 kDa, Protein from Escherichia coli BL21(DE3))
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Heme exporter protein d (7 kDa, Protein from Escherichia coli BL21(DE3))
- Heme exporter protein c (27 kDa, Protein from Escherichia coli BL21(DE3))
Cytochrome c-type biogenesis protein CcmABCD from E. coli in complex with heme and single ATP
Resolution: 4.03 Å
EM Method: Single-particle
Fitted PDBs: 7vfp
Q-score: 0.31
Li J, Zheng W, Gu M, Han L, Luo Y, Yu K, Sun M, Zong Y, Ma X, Liu B, Lowder EP, Mendez DL, Kranz RG, Zhang K, Zhu J
Nat Commun (2022) 13 pp. 6422-6422 [ Pubmed: 36307425 DOI: doi:10.1038/s41467-022-34136-5 ]
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Water (18 Da, Ligand)
- Cytochrome c biogenesis atp-binding export protein ccma (22 kDa, Protein from Escherichia coli BL21(DE3))
- Heme exporter protein b (23 kDa, Protein from Escherichia coli BL21(DE3))
- Protoporphyrin ix containing fe (616 Da, Ligand)
- The cytochrome c maturation complex ccmabcd (130 kDa, Complex from Escherichia coli BL21(DE3))
- Heme exporter protein d (7 kDa, Protein from Escherichia coli BL21(DE3))
- Heme exporter protein c (27 kDa, Protein from Escherichia coli BL21(DE3))
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 7wld
Q-score: 0.615
Xu Y, Jia G, Li T, Zhou Z, Luo Y, Chao Y, Bao J, Su Z, Qu Q, Li D
Nat Commun (2022) 13 pp. 2617-2617 [ Pubmed: 35551457 DOI: doi:10.1038/s41467-022-30250-6 ]
- [(2~{r})-1-hexadecanoyloxy-3-[[(1~{s},2~{r},3~{r},4~{s},5~{s},6~{r})-2-hexadecanoyloxy-3,4,5,6-tetrakis(oxidanyl)cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-propan-2-yl] (9~{z},11~{z})-octadeca-9,11-dienoate (1 kDa, Ligand)
- Cardiolipin (1 kDa, Ligand)
- (4s,7r)-7-[(hexadecanoyloxy)methyl]-4-hydroxy-n,n,n-trimethyl-4,9-dioxo-3,5,8-trioxa-4lambda~5~-phosphahexacosan-1-aminium (763 Da, Ligand)
- Digitonin (1 kDa, Ligand)
- Gpi transamidase component pig-t (94 kDa, Protein from Homo sapiens)
- 2-azanylethyl [(2~{s},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-2,4,5-tris(oxidanyl)oxan-3-yl] hydrogen phosphate (303 Da, Ligand)
- Gpi transamidase complex (Complex from Homo sapiens)
- Phosphatidylinositol glycan anchor biosynthesis class u protein (80 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- 2-amino-2-deoxy-alpha-d-glucopyranose (179 Da, Ligand)
- Glycosylphosphatidylinositol anchor attachment 1 protein (96 kDa, Protein from Homo sapiens)
- Gpi transamidase component pig-s (90 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- [(2r)-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] octadecanoate (720 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Gpi-anchor transamidase (73 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of prefusion SARS-CoV-2 spike omicron B.1.1.529 variant
Al-bound structure of the AtALMT1 mutant M60A
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7voj
Q-score: 0.504
Wang J, Yu X, Ding ZJ, Zhang X, Luo Y, Xu X, Xie Y, Li X, Yuan T, Zheng SJ, Yang W, Guo J
Cell Res (2022) 32 pp. 89-98 [ Pubmed: 34799726 DOI: doi:10.1038/s41422-021-00587-6 ]
- Acetic acid (60 Da, Ligand)
- Aluminum-activated malate transporter 1 (56 kDa, Protein from Arabidopsis thaliana)
- Al-bound protein sample of the atalmt1 mutant m60a (120 MDa, Complex from Arabidopsis thaliana)
- Aluminum ion (26 Da, Ligand)
The malate-bound AtALMT1 structure at pH 7.5 (ALMT1malate/pH7.5)
Cryo-EM structure of pFTY720-bound Sphingosine 1-phosphate receptor 3 in complex with Gi protein
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7ew2
Q-score: 0.441
Zhao C, Cheng L, Wang W, Wang H, Luo Y, Feng Y, Wang X, Fu H, Cai Y, Yang S, Fu P, Yan W, Shao Z
Cell Res (2022) 32 pp. 218-221 [ DOI: doi:10.1038/s41422-021-00567-w Pubmed: 34545189 ]
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Sphingosine 1-phosphate receptor 3 (46 kDa, Protein from Homo sapiens)
- Scfv16 (28 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Sphingosine 1-phosphate receptor 3 complexed with gi protein (Complex from Homo sapiens)
- (2~{s})-2-azanyl-4-(4-octylphenyl)-2-[[oxidanyl-bis(oxidanylidene)-$l^{6}-phosphanyl]oxymethyl]butan-1-ol (387 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)