Cryo-EM Structure of the Prostaglandin D2 Receptor 2-PGD2 Coupled to G Protein
Resolution: 2.82 Å
EM Method: Single-particle
Fitted PDBs: 9iyb
Q-score: 0.475
Xu J, Xu Y, Hou L, He X, Li Y, Zhao J, Meng X, Wang JJ, Wu Y, Zhang H, Li Y, Hu W, Yuan Q, Wu K, Cheng X, Jiang Y, Xia Y, Xu HE, Wu C
PNAS (2024) 121 pp. e2403304121-e2403304121 [ DOI: doi:10.1073/pnas.2403304121 Pubmed: 39665758 ]
- Prostaglandin d2 receptor 2-pgd2-g protein complex (160 kDa, Complex from Homo sapiens)
- Water (18 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Prostaglandin d2 receptor 2 (43 kDa, Protein from Homo sapiens)
- Prostaglandin d2 (352 Da, Ligand)
- Scfv16 (26 kDa, Protein from Rattus norvegicus)
- [(2~{r})-1-hexadecanoyloxy-3-[oxidanyl-[(2~{s},3~{r},5~{r},6~{s})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl]oxy-phosphoryl]oxy-propan-2-yl] (~{z})-octadec-9-enoate (837 Da, Ligand)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8xyd
Q-score: 0.366
Fan W, Xu Y, He X, Luo P, Zhu J, Li J, Wang R, Yuan Q, Wu K, Hu W, Zhao Y, Xu S, Cheng X, Wang Y, Xu HE, Zhuang Y
Cell Rep (2024) 43 pp. 114422-114422 [ DOI: doi:10.1016/j.celrep.2024.114422 Pubmed: 38943642 ]
- Ptafr-paf g protein complex (Complex from Homo sapiens)
- Scfv16 (26 kDa, Protein from Mus musculus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Platelet-activating factor receptor (39 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- (2r)-2-(acetyloxy)-3-(hexadecyloxy)propyl 2-(trimethylammonio)ethyl phosphate (523 Da, Ligand)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
Cryo-EM structure of alpha5beta1 integrin in complex with NeoNectin
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 9ckv
Q-score: 0.482
Wang X, Guillem-Marti J, Kumar S, Lee DS, Cabrerizo-Aguado D, Werther R, Alamo KAE, Zhao YT, Nguyen A, Kopyeva I, Huang B, Li J, Hao Y, Li X, Brizuela-Velasco A, Murray A, Gerben S, Roy A, DeForest CA, Springer T, Ruohola-Baker H, Cooper JA, Campbell MG, Manero JM, Ginebra MP, Baker D
bioRxiv (2024) [ DOI: doi:10.1101/2024.06.21.600123 Pubmed: 38979380 ]
- Integrin beta-1 (81 kDa, Protein from Homo sapiens)
- Manganese (ii) ion (54 Da, Ligand)
- Protein complex of wild type integrin alpha-5 beta-1 with computationally designed protein neonectin (Complex from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Neonectin (11 kDa, Protein from synthetic construct)
- Integrin alpha-5 (109 kDa, Protein from Homo sapiens)
Cryo-EM structure of a DNA-protein complex
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8jsi
Q-score: 0.558
To Be Published
- Magnesium ion (24 Da, Ligand)
- Argonaute family protein (87 kDa, Protein from Thermococcus thioreducens)
- Zinc ion (65 Da, Ligand)
- Dna (5'-d(p*gp*gp*ap*gp*gp*tp*ap*gp*tp*ap*gp*gp*tp*tp*gp*t)-3') (5 kDa, DNA from Thermococcus thioreducens)
- Dna (5'-d(p*ap*cp*ap*ap*cp*cp*tp*ap*cp*tp*ap*cp*cp*tp*cp*c)-3') (4 kDa, DNA from Thermococcus thioreducens)
- A dna-protein complex (Complex from Thermococcus thioreducens)
Structure of 26RFa-pyroglutamylated RFamide peptide receptor complex
Resolution: 2.73 Å
EM Method: Single-particle
Fitted PDBs: 8wz2
Q-score: 0.45
Jin S, Guo S, Xu Y, Li X, Wu C, He X, Pan B, Xin W, Zhang H, Hu W, Yin Y, Zhang T, Wu K, Yuan Q, Xu HE, Xie X, Jiang Y
Cell Discov (2024) 10 pp. 58-58 [ Pubmed: 38830850 DOI: doi:10.1038/s41421-024-00670-3 ]
- Structure of 26rfa-pyroglutamylated rfamide peptide receptor-g protein complex (160 kDa, Complex from Homo sapiens)
- Scfv16 (26 kDa, Protein from Homo sapiens)
- Orexigenic neuropeptide qrfp (2 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- Pyroglutamylated rf-amide peptide receptor (49 kDa, Protein from Homo sapiens)
- G-alpha q (41 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Rattus norvegicus)
Cryo-EM structure of the cortistatin 17-bound Somatostatin receptor 5-Gi protein complex
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8x8l
Q-score: 0.493
Li J, You C, Li Y, Li C, Fan W, Chen Z, Hu W, Wu K, Xu HE, Zhao LH
PNAS (2024) 121 pp. e2321710121-e2321710121 [ Pubmed: 38885377 DOI: doi:10.1073/pnas.2321710121 ]
- Cortistatin (2 kDa, Protein from Homo sapiens)
- Cortistatin 17-bound somatostatin receptor 5-gi protein complex (Complex from Homo sapiens)
- Somatostatin receptor type 5 (39 kDa, Protein from Homo sapiens)
- Scfv16 (26 kDa, Protein from Mus musculus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha (41 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
Cryo-EM structure of the octreotide-bound Somatostatin receptor 5-Gi protein complex
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8x8n
Q-score: 0.483
Li J, You C, Li Y, Li C, Fan W, Chen Z, Hu W, Wu K, Xu HE, Zhao LH
PNAS (2024) 121 pp. e2321710121-e2321710121 [ Pubmed: 38885377 DOI: doi:10.1073/pnas.2321710121 ]
- Scfv16 (26 kDa, Protein from Mus musculus)
- Octreotide (1 kDa, Protein from Homo sapiens)
- Somatostatin receptor type 5 (39 kDa, Protein from Homo sapiens)
- Octreotide-bound somatostatin receptor 5-gi protein complex (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha (41 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
The structure of PSI-11CAC at the stationary growth phase
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8wmw
Q-score: 0.526
Zhang S, Si L, Su X, Zhao X, An X, Li M
Commun Biol (2024) 7 pp. 560-560 [ DOI: doi:10.1038/s42003-024-06268-5 Pubmed: 38734819 ]
- Cac-a (23 kDa, Protein from Rhodomonas salina)
- Chlorophyll c2 (608 Da, Ligand)
- Psao (15 kDa, Protein from Rhodomonas salina)
- Cac-d (22 kDa, Protein from Rhodomonas salina)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Rhodomonas salina)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Cac-b (23 kDa, Protein from Rhodomonas salina)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e})-3,7,12,16-tetramethyl-18-[(4~{r})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-3,5,7,9,11,13,15-heptaen-1,17-diynyl]cyclohex-3-en-1-ol (564 Da, Ligand)
- 1,3,3-trimethyl-2-[(1e,3e,5e,7e,9e,11e,13e,15e,17e)-3,7,12,16-tetramethyl-18-[(1r)-2,6,6-trimethylcyclohex-2-en-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohexene (536 Da, Ligand)
- Cac-c (23 kDa, Protein from Rhodomonas salina)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Pigment binding protein complex (Complex from Rhodomonas salina)
- Cac-i (23 kDa, Protein from Rhodomonas salina)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Rhodomonas salina)
- Photosystem i iron-sulfur center (8 kDa, Protein from Rhodomonas salina)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Rhodomonas salina)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Rhodomonas salina)
- Dodecyl-alpha-d-maltoside (510 Da, Ligand)
- Photosystem i reaction center subunit ii (15 kDa, Protein from Rhodomonas salina)
- Cac-e (21 kDa, Protein from Rhodomonas salina)
- (1~{r})-3,5,5-trimethyl-4-[(3~{e},5~{e},7~{e},9~{e},11~{e},13~{e},15~{e},17~{e})-3,7,12,16-tetramethyl-18-(2,6,6-trimethylcyclohexen-1-yl)octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol (550 Da, Ligand)
- Photosystem i reaction center subunit xi (16 kDa, Protein from Rhodomonas salina)
- Photosystem i reaction center subunit psak (8 kDa, Protein from Rhodomonas salina)
- Cac-f (22 kDa, Protein from Rhodomonas salina)
- Cac-g (26 kDa, Protein from Rhodomonas salina)
- Phylloquinone (450 Da, Ligand)
- Photosystem i reaction center subunit iii (20 kDa, Protein from Rhodomonas salina)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Rhodomonas salina)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Rhodomonas salina)
- Chlorophyll a (893 Da, Ligand)
- Water (18 Da, Ligand)
- Cac-h (23 kDa, Protein from Rhodomonas salina)
- Iron/sulfur cluster (351 Da, Ligand)
- Psar (13 kDa, Protein from Rhodomonas salina)
- Cac-k (25 kDa, Protein from Rhodomonas salina)
cryo-EM structure of human EMC
Resolution: 3.47 Å
EM Method: Single-particle
Fitted PDBs: 8j0n
Q-score: 0.031
Li M, Zhang C, Xu Y, Li S, Huang C, Wu J, Lei M
Aging (Albany NY) (2024) 16 pp. 5501-5525 [ DOI: doi:10.18632/aging.205660 Pubmed: 38517390 ]
- Er membrane protein complex subunit 4 (20 kDa, Protein from Homo sapiens)
- Emc (Complex from Homo sapiens)
- Er membrane protein complex subunit 10 (21 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 1 (111 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 3 (29 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 6 (12 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 8 (23 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 2 (34 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 7 (26 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 5 (14 kDa, Protein from Homo sapiens)
cryo-EM structure of human EMC and VDAC
Resolution: 3.32 Å
EM Method: Single-particle
Fitted PDBs: 8j0o
Q-score: 0.017
Li M, Zhang C, Xu Y, Li S, Huang C, Wu J, Lei M
Aging (Albany NY) (2024) 16 pp. 5501-5525 [ DOI: doi:10.18632/aging.205660 Pubmed: 38517390 ]
- Er membrane protein complex subunit 4 (20 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 10 (21 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 1 (111 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 3 (29 kDa, Protein from Homo sapiens)
- Voltage-dependent anion-selective channel protein 1 (30 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 6 (12 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 8 (23 kDa, Protein from Homo sapiens)
- Emc_vdac (Complex from Homo sapiens)
- Er membrane protein complex subunit 2 (34 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 7 (26 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 5 (14 kDa, Protein from Homo sapiens)