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 ]
- Complex structure of cid25-ackr3-cxcl12- cid24 (Complex)
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- Cid25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cid25 fab light chain (23 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 ]
- Cid25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Complex structure of cid25-ackr3-cxcl12_lrhq-cid24 (Complex)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Stromal cell-derived factor 1 (8 kDa, Protein from Homo sapiens)
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Cid25 fab light chain (23 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
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 ]
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Complex structure of ackr3-cxcl12-cid24-nb (Complex)
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Anti-fab nanobody (13 kDa, Protein from Lama glama)
- 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 ]
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Stromal cell-derived factor 1 (8 kDa, Protein from Homo sapiens)
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Cid24 fab heavy chain (25 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 ]
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- Cid25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Complex structure of nb-cid25-ackr3-cxcl12-ccx662 (Complex)
- Anti-fab nanobody (13 kDa, Protein from Lama glama)
- 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)
- Cid25 fab light chain (23 kDa, Protein from Homo sapiens)
- 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 ]
- Stromal cell-derived factor 1 (7 kDa, Protein from Homo sapiens)
- Cid25 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Complex structure of cid25-ackr3-cxcl12-ccx662-cid24 (Complex)
- Cid24 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)
- Cholesterol (386 Da, Ligand)
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 ]
- Cid24 fab light chain (23 kDa, Protein from Homo sapiens)
- Atypical chemokine receptor 3 (45 kDa, Protein from Homo sapiens)
- Cid24 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)
- Complex structure of ackr3-ccx662- cid24 (Complex)
- Cholesterol (386 Da, Ligand)
Rhodopsin kinase (GRK1)-S5E/S488E/T489E in complex with rhodopsin
Chen Q, Plasencia M, Li Z, Mukherjee S, Patra D, Chen CL, Klose T, Yao XQ, Kossiakoff AA, Chang L, Andrews PC, Tesmer JJG
Nature (2021) 595 pp. 600-605 [ DOI: doi:10.1038/s41586-021-03721-x Pubmed: 34262173 ]
- Sangivamycin (309 Da, Ligand)
- Rhodopsin kinase (grk1)-s5e/s488e/t489e in complex with rhodopsin (Complex from Bos taurus)
- Retinal (284 Da, Ligand)
- Rhodopsin (39 kDa, Protein from Bos taurus)
- Rhodopsin kinase grk1 (61 kDa, Protein from Bos taurus)
Rhodopsin kinase (GRK1) in complex with rhodopsin
Chen Q, Plasencia M, Li Z, Mukherjee S, Patra D, Chen CL, Klose T, Yao XQ, Kossiakoff AA, Chang L, Andrews PC, Tesmer JJG
Nature (2021) 595 pp. 600-605 [ DOI: doi:10.1038/s41586-021-03721-x Pubmed: 34262173 ]
- Sangivamycin (309 Da, Ligand)
- Rhodopsin kinase grk1 (61 kDa, Protein from Bos taurus)
- Retinal (284 Da, Ligand)
- Rhodopsin kinase (grk1) in complex with rhodopsin (Complex from Bos taurus)
- Rhodopsin (39 kDa, Protein from Bos taurus)
Rhodopsin kinase (GRK1)-S5E/S488E/T489E in complex with rhodopsin and Fab1
Chen Q, Plasencia M, Li Z, Mukherjee S, Patra D, Chen CL, Klose T, Yao XQ, Kossiakoff AA, Chang L, Andrews PC, Tesmer JJG
Nature (2021) 595 pp. 600-605 [ DOI: doi:10.1038/s41586-021-03721-x Pubmed: 34262173 ]
- Rhodopsin kinase (grk1)-s5e/s488e/t489e in complex with rhodopsin stabilized by fab1 (Complex)
- Fab1 light chain (23 kDa, Protein from Homo sapiens)
- Fab1 heavy chain (24 kDa, Protein from Homo sapiens)
- Sangivamycin (309 Da, Ligand)
- Fab heavy and light chains (Complex from Homo sapiens)
- Retinal (284 Da, Ligand)
- Rhodopsin kinase grk1 (61 kDa, Protein from Bos taurus)
- Rhodopsin (39 kDa, Protein from Bos taurus)
- Rhodopsin kinase, rhodopsin (Complex from Bos taurus)