Cryo-EM structure of ACKR3 in complex with CXCL12, an intracellular Fab, and an extracellular Fab
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7sk3
Q-score: 0.492
Yen YC, Schafer CT, Gustavsson M, Eberle SA, Dominik PK, Deneka D, Zhang P, Schall TJ, Kossiakoff AA, Tesmer JJG, Handel TM
Sci Adv (2022) 8 pp. eabn8063-eabn8063 [ Pubmed: 35857509 DOI: doi:10.1126/sciadv.abn8063 ]
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Complex structure of cid25-ackr3-cxcl12- cid24 (Complex)
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Cid25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cid25 fab light chain (23 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7sk4
Q-score: 0.481
Yen YC, Schafer CT, Gustavsson M, Eberle SA, Dominik PK, Deneka D, Zhang P, Schall TJ, Kossiakoff AA, Tesmer JJG, Handel TM
Sci Adv (2022) 8 pp. eabn8063-eabn8063 [ Pubmed: 35857509 DOI: doi:10.1126/sciadv.abn8063 ]
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Complex structure of cid25-ackr3-cxcl12_lrhq-cid24 (Complex)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Cid25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cid25 fab light chain (23 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Stromal cell-derived factor 1 (8 kDa, Protein from Homo sapiens)
Cryo-EM structure of ACKR3 in complex with CXCL12 and an intracellular Fab
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7sk5
Q-score: 0.438
Yen YC, Schafer CT, Gustavsson M, Eberle SA, Dominik PK, Deneka D, Zhang P, Schall TJ, Kossiakoff AA, Tesmer JJG, Handel TM
Sci Adv (2022) 8 pp. eabn8063-eabn8063 [ Pubmed: 35857509 DOI: doi:10.1126/sciadv.abn8063 ]
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Anti-fab nanobody (13 kDa, Protein from Lama glama)
- Complex structure of ackr3-cxcl12-cid24-nb (Complex)
- Cholesterol (386 Da, Ligand)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7sk6
Q-score: 0.285
Yen YC, Schafer CT, Gustavsson M, Eberle SA, Dominik PK, Deneka D, Zhang P, Schall TJ, Kossiakoff AA, Tesmer JJG, Handel TM
Sci Adv (2022) 8 pp. eabn8063-eabn8063 [ Pubmed: 35857509 DOI: doi:10.1126/sciadv.abn8063 ]
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Stromal cell-derived factor 1 (8 kDa, Protein from Homo sapiens)
- Complex structure of ackr3-cxcl12_lrhq- cid24 (Complex from Homo sapiens)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7sk7
Q-score: 0.514
Yen YC, Schafer CT, Gustavsson M, Eberle SA, Dominik PK, Deneka D, Zhang P, Schall TJ, Kossiakoff AA, Tesmer JJG, Handel TM
Sci Adv (2022) 8 pp. eabn8063-eabn8063 [ Pubmed: 35857509 DOI: doi:10.1126/sciadv.abn8063 ]
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- (1r)-4-[7-(3-carboxypropoxy)-6-methylquinolin-8-yl]-1-{[2-(4-hydroxypiperidin-1-yl)-1,3-thiazol-4-yl]methyl}-1,4-diazepan-1-ium (540 Da, Ligand)
- Cid25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Complex structure of nb-cid25-ackr3-cxcl12-ccx662 (Complex)
- Cid25 fab light chain (23 kDa, Protein from Homo sapiens)
- Anti-fab nanobody (13 kDa, Protein from Lama glama)
- Cholesterol (386 Da, Ligand)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7sk8
Q-score: 0.543
Yen YC, Schafer CT, Gustavsson M, Eberle SA, Dominik PK, Deneka D, Zhang P, Schall TJ, Kossiakoff AA, Tesmer JJG, Handel TM
Sci Adv (2022) 8 pp. eabn8063-eabn8063 [ Pubmed: 35857509 DOI: doi:10.1126/sciadv.abn8063 ]
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Cid25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- (1r)-4-[7-(3-carboxypropoxy)-6-methylquinolin-8-yl]-1-{[2-(4-hydroxypiperidin-1-yl)-1,3-thiazol-4-yl]methyl}-1,4-diazepan-1-ium (540 Da, Ligand)
- Cid25 fab light chain (23 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Complex structure of cid25-ackr3-cxcl12-ccx662-cid24 (Complex)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7sk9
Q-score: 0.482
Yen YC, Schafer CT, Gustavsson M, Eberle SA, Dominik PK, Deneka D, Zhang P, Schall TJ, Kossiakoff AA, Tesmer JJG, Handel TM
Sci Adv (2022) 8 pp. eabn8063-eabn8063 [ Pubmed: 35857509 DOI: doi:10.1126/sciadv.abn8063 ]
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- (1r)-4-[7-(3-carboxypropoxy)-6-methylquinolin-8-yl]-1-{[2-(4-hydroxypiperidin-1-yl)-1,3-thiazol-4-yl]methyl}-1,4-diazepan-1-ium (540 Da, Ligand)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Complex structure of ackr3-ccx662- cid24 (Complex)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
Structure of AtTPC1(DDE) reconstituted in saposin A with cat06 Fab
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6e1k
Q-score: 0.408
Kintzer AF, Green EM, Dominik PK, Bridges M, Armache JP, Deneka D, Kim SS, Hubbell W, Kossiakoff AA, Cheng Y, Stroud RM
PNAS (2018) 115 pp. E9095-E9104 [ DOI: doi:10.1073/pnas.1805651115 Pubmed: 30190435 ]
- Water (18 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Two pore calcium channel protein 1 (84 kDa, Protein from Arabidopsis thaliana)
- Cat06 light chain (23 kDa, Protein from Homo sapiens)
- Cat06 heavy chain (24 kDa, Protein from Homo sapiens)
- Attpc1(dde) reconstituted in saposin a (Complex from Arabidopsis thaliana)
- Calcium ion (40 Da, Ligand)
Structure of AtTPC1(DDE) reconstituted in saposin A
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6e1m
Q-score: 0.462
Kintzer AF, Green EM, Dominik PK, Bridges M, Armache JP, Deneka D, Kim SS, Hubbell W, Kossiakoff AA, Cheng Y, Stroud RM
PNAS (2018) 115 pp. E9095-E9104 [ DOI: doi:10.1073/pnas.1805651115 Pubmed: 30190435 ]
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Attpc1(dde) (Complex from Arabidopsis thaliana)
- Two pore calcium channel protein 1 (84 kDa, Protein from Arabidopsis thaliana)
- Water (18 Da, Ligand)
- Calcium ion (40 Da, Ligand)
Structure of AtTPC1(DDE) in state 1
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6e1n
Q-score: 0.398
Kintzer AF, Green EM, Dominik PK, Bridges M, Armache JP, Deneka D, Kim SS, Hubbell W, Kossiakoff AA, Cheng Y, Stroud RM
PNAS (2018) 115 pp. E9095-E9104 [ DOI: doi:10.1073/pnas.1805651115 Pubmed: 30190435 ]
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Attpc1(dde) (Complex from Arabidopsis thaliana)
- Two pore calcium channel protein 1 (84 kDa, Protein from Arabidopsis thaliana)
- Water (18 Da, Ligand)
- Calcium ion (40 Da, Ligand)