Cryo-EM structure of Medium-wave-sensitive opsin 1
Resolution: 2.48 Å
EM Method: Single-particle
Fitted PDBs: 8y01
Q-score: 0.54
Peng Q, Jiang HH, Cheng XY, Li J, Zhang J
To Be Published
- Scfv recombinant human monoclonal antibody (scfv16) (28 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Retinal (284 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- M-opsin-gi (180 MDa, Complex from Homo)
- Medium-wave-sensitive opsin 1 (40 kDa, Protein from Homo sapiens)
Integrin alpha-v beta-8 in complex with the Fab of 130H2
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 9ind
Q-score: 0.533
Guo C, Sun H, Du Y, Dai X, Pang Y, Han Z, Xiong X, Li S, Zhang J, Zheng Q, Gui X
J Exp Clin Cancer Res (2025) 44 pp. 1-1 [ Pubmed: 39743547 DOI: doi:10.1186/s13046-024-03250-1 ]
- Integrin alpha-v beta-8 (Complex from Homo)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Integrin beta-8 (39 kDa, Protein from Homo sapiens)
- Integrin alpha-v heavy chain (47 kDa, Protein from Homo sapiens)
- The heavy chain of 130h2-fab (13 kDa, Protein from Mus musculus)
- 130h2-fab (Complex from Mus musculus)
- The light chain of 130h2-fab (11 kDa, Protein from Mus musculus)
- Integrin alpha-v beta-8 complexed with antibody fab fragment of 130h2 (Complex)
CryoEM structure of human XPR1 in complex with phosphate in state A
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9j51
Q-score: 0.468
Zhang W, Chen Y, Guan Z, Wang Y, Tang M, Du Z, Zhang J, Cheng M, Zuo J, Liu Y, Wang Q, Liu Y, Zhang D, Yin P, Ma L, Liu Z
Nat Commun (2025) 16 pp. 18-18 [ DOI: doi:10.1038/s41467-024-55471-9 Pubmed: 39747008 ]
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Phosphate ion (94 Da, Ligand)
- Solute carrier family 53 member 1 (84 kDa, Protein from Homo sapiens)
- Human xpr1 (Complex from Homo sapiens)
CryoEM structure of human XPR1 in complex with phosphate in state B
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9j52
Q-score: 0.468
Zhang W, Chen Y, Guan Z, Wang Y, Tang M, Du Z, Zhang J, Cheng M, Zuo J, Liu Y, Wang Q, Liu Y, Zhang D, Yin P, Ma L, Liu Z
Nat Commun (2025) 16 pp. 18-18 [ DOI: doi:10.1038/s41467-024-55471-9 Pubmed: 39747008 ]
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Phosphate ion (94 Da, Ligand)
- Solute carrier family 53 member 1 (84 kDa, Protein from Homo sapiens)
- Human xpr1 (Complex from Homo sapiens)
CryoEM structure of human XPR1 in complex with phosphate in state C
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9j53
Q-score: 0.413
Zhang W, Chen Y, Guan Z, Wang Y, Tang M, Du Z, Zhang J, Cheng M, Zuo J, Liu Y, Wang Q, Liu Y, Zhang D, Yin P, Ma L, Liu Z
Nat Commun (2025) 16 pp. 18-18 [ DOI: doi:10.1038/s41467-024-55471-9 Pubmed: 39747008 ]
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Phosphate ion (94 Da, Ligand)
- Solute carrier family 53 member 1 (84 kDa, Protein from Homo sapiens)
- Human xpr1 (Complex from Homo sapiens)
PSI-FCPI-L in Thalassiosira pseudonana
Resolution: 2.78 Å
EM Method: Single-particle
Fitted PDBs: 8zeh
Q-score: 0.566
Feng Y, Li Z, Yang Y, Shen L, Li X, Liu X, Zhang X, Zhang J, Ren F, Wang Y, Liu C, Han G, Wang X, Kuang T, Shen JR, Wang W
J Integr Plant Biol (2024) [ DOI: doi:10.1111/jipb.13816 Pubmed: 39670505 ]
- Photosystem i reaction center subunit xii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Phylloquinone (450 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Tp-lhcr18 (16 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Beta-carotene (536 Da, Ligand)
- Chlorophyll c1 (610 Da, Ligand)
- Fucoxanthin chlorophyll a/c light-harvesting protein (19 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ii (14 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein, major type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Pt17531-like protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Tp-redcap (20 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (19 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- Fucoxanthin chlorophyll a/c-binding protein lhcq8 (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i iron-sulfur center (8 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (3s,3'r,5r,6s,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol (582 Da, Ligand)
- Tp-psar (9 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (1~{r})-3,5,5-trimethyl-4-[(1~{e},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-1,3,5,7,9,11,13,15-octaen-17-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Photosystem i reaction center subunit iii (17 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit psa29 (13 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein, lhcr type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chlorophyll a/c light-harvesting protein, lhcr type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Tp-psi-fcpi-l (Complex from Thalassiosira pseudonana CCMP1335)
- Tp-lhcr20 (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit xi (15 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chlorophyll a/c light-harvesting protein (23 kDa, Protein from Thalassiosira pseudonana CCMP1335)
Tp-PSI-FCPI-S in Thalassiosira pseudonana
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8zet
Q-score: 0.485
Feng Y, Li Z, Yang Y, Shen L, Li X, Liu X, Zhang X, Zhang J, Ren F, Wang Y, Liu C, Han G, Wang X, Kuang T, Shen JR, Wang W
J Integr Plant Biol (2024) [ DOI: doi:10.1111/jipb.13816 Pubmed: 39670505 ]
- Photosystem i reaction center subunit xii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Phylloquinone (450 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i p700 chlorophyll a apoprotein a2 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Beta-carotene (536 Da, Ligand)
- Chlorophyll c1 (610 Da, Ligand)
- Photosystem i reaction center subunit ii (14 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit iv (7 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein, major type (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Pt17531-like protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Tp-redcap (20 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (3s,3's,5r,5'r,6s,6'r,8'r)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate (658 Da, Ligand)
- Fucoxanthin chlorophyll a/c-binding protein lhcq8 (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i iron-sulfur center (8 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i p700 chlorophyll a apoprotein a1 (82 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (3s,3'r,5r,6s,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol (582 Da, Ligand)
- Tp-psar (9 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- (1~{r})-3,5,5-trimethyl-4-[(1~{e},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-1,3,5,7,9,11,13,15-octaen-17-ynyl]cyclohex-3-en-1-ol (566 Da, Ligand)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- Photosystem i reaction center subunit iii (17 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Photosystem i reaction center subunit psa29 (13 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Fucoxanthin chl a/c light-harvesting protein (18 kDa, Protein from Thalassiosira pseudonana CCMP1335)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- Tp-psi-fcpi-s (Complex from Thalassiosira pseudonana CCMP1335)
- Iron/sulfur cluster (351 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Photosystem i reaction center subunit xi (15 kDa, Protein from Thalassiosira pseudonana CCMP1335)
ACAD11 D220A with 4-hydroxyvaleryl-CoA
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8v3u
Q-score: 0.637
ACAD11 D753N with 4-phosphovaleryl-CoA
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8v3v
Q-score: 0.471
CryoEM structure of compound HNC-1664 bound with RdRP-RNA complex of SARS-CoV-2
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 8xko
Q-score: 0.486
Jia X, Jing X, Li M, Gao M, Zhong Y, Li E, Liu Y, Li R, Yao G, Liu Q, Zhou M, Hou Y, An L, Hong Y, Li S, Zhang J, Wang W, Zhang K, Gong P, Chiu S
Nat Commun (2024) 15 pp. 10750-10750 [ DOI: doi:10.1038/s41467-024-54918-3 Pubmed: 39737930 ]
- Rna (5'-r(p*up*up*cp*ap*up*gp*cp*up*ap*cp*gp*cp*gp*up*ap*g)-3') (5 kDa, RNA from synthetic construct)
- Cryoem structure of compound hnc-1644 bound with rdrp-rna (150 kDa, Complex from Severe acute respiratory syndrome coronavirus)
- Non-structural protein 7 (10 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- [[(2~{r},3~{r},4~{s},5~{r})-4-fluoranyl-5-(5-iodanyl-4-methyl-pyrrolo[2,3-d]pyrimidin-7-yl)-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (633 Da, Ligand)
- Rna (5'-r(p*cp*up*ap*cp*gp*cp*gp*up*ap*gp*cp*ap*up*g)-3') (4 kDa, RNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Non-structural protein 8 (23 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Rna-directed rna polymerase nsp12 (108 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)