Resolution: 2.72 Å
EM Method: Single-particle
Fitted PDBs: 7zlg
Q-score: 0.454
Bloch JS, John A, Mao R, Mukherjee S, Boilevin J, Irobalieva RN, Darbre T, Scott NE, Reymond JL, Kossiakoff AA, Goddard-Borger ED, Locher KP
Nat Chem Biol (2023) 19 pp. 575-584 [ Pubmed: 36604564 DOI: doi:10.1038/s41589-022-01219-9 ]
- Synthetic octapeptide wehi 1886493 (821 Da, Protein from synthetic construct)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Water (18 Da, Ligand)
- C-mannosyltransferase cedpy19, in complex with acceptor peptide and bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
Resolution: 2.75 Å
EM Method: Single-particle
Fitted PDBs: 7zlh
Q-score: 0.455
Bloch JS, John A, Mao R, Mukherjee S, Boilevin J, Irobalieva RN, Darbre T, Scott NE, Reymond JL, Kossiakoff AA, Goddard-Borger ED, Locher KP
Nat Chem Biol (2023) 19 pp. 575-584 [ Pubmed: 36604564 DOI: doi:10.1038/s41589-022-01219-9 ]
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Water (18 Da, Ligand)
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- C-mannosyltransferase cedpy19, in apo state, bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 7zli
Q-score: 0.496
Bloch JS, John A, Mao R, Mukherjee S, Boilevin J, Irobalieva RN, Darbre T, Scott NE, Reymond JL, Kossiakoff AA, Goddard-Borger ED, Locher KP
Nat Chem Biol (2023) 19 pp. 575-584 [ Pubmed: 36604564 DOI: doi:10.1038/s41589-022-01219-9 ]
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Water (18 Da, Ligand)
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
- C-mannosyltransferase cedpy19, in complex with dol25-p-man and bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
- [(2~{s},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl] [(3~{s},6~{z},10~{e},14~{e})-3,7,11,15,19-pentamethylicosa-6,10,14,18-tetraenyl] hydrogen phosphate (602 Da, Ligand)
Resolution: 3.63 Å
EM Method: Single-particle
Fitted PDBs: 7zlj
Q-score: 0.411
Bloch JS, John A, Mao R, Mukherjee S, Boilevin J, Irobalieva RN, Darbre T, Scott NE, Reymond JL, Kossiakoff AA, Goddard-Borger ED, Locher KP
Nat Chem Biol (2023) 19 pp. 575-584 [ Pubmed: 36604564 DOI: doi:10.1038/s41589-022-01219-9 ]
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Water (18 Da, Ligand)
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- C-mannosyltransferase cedpy19, in ternary complex with dol25-p-c-man and acceptor peptide, bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
- Synthetic octapeptide wehi 1886493 (821 Da, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
- [(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]methyl-[(3~{s},6~{e},10~{z},14~{e})-3,7,11,15,19-pentamethylicosa-6,10,14,18-tetraenoxy]phosphinic acid (600 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 [ Pubmed: 34262173 DOI: doi:10.1038/s41586-021-03721-x ]
- Retinal (284 Da, Ligand)
- Rhodopsin kinase grk1 (61 kDa, Protein from Bos taurus)
- Rhodopsin (39 kDa, Protein from Bos taurus)
- Rhodopsin kinase (grk1)-s5e/s488e/t489e in complex with rhodopsin (Complex from Bos taurus)
- Sangivamycin (309 Da, Ligand)
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 [ Pubmed: 34262173 DOI: doi:10.1038/s41586-021-03721-x ]
- 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 (61 kDa, Protein from Bos taurus)
- Sangivamycin (309 Da, Ligand)
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 [ Pubmed: 34262173 DOI: doi:10.1038/s41586-021-03721-x ]
- Rhodopsin kinase, rhodopsin (Complex from Bos taurus)
- Retinal (284 Da, Ligand)
- Rhodopsin kinase grk1 (61 kDa, Protein from Bos taurus)
- 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)
- Rhodopsin (39 kDa, Protein from Bos taurus)
- Fab heavy and light chains (Complex from Homo sapiens)
- Sangivamycin (309 Da, Ligand)
Rhodopsin kinase (GRK1)-S5E/S488E/T489E in complex with rhodopsin and Fab6
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 [ Pubmed: 34262173 DOI: doi:10.1038/s41586-021-03721-x ]
- Rhodopsin kinase, rhodopsin (Complex from Bos taurus)
- Retinal (284 Da, Ligand)
- Rhodopsin kinase grk1 (61 kDa, Protein from Bos taurus)
- Rhodopsin kinase (grk1)-s5e/s488e/t489e in complex with rhodopsin stabilized by fab6 (Complex)
- Fab6 light chain (23 kDa, Protein from Homo sapiens)
- Rhodopsin (39 kDa, Protein from Bos taurus)
- Fab6 heavy chain (25 kDa, Protein from Homo sapiens)
- Fab6 heavy and light chains (Complex from Homo sapiens)
- Sangivamycin (309 Da, Ligand)
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 6cmo
Q-score: 0.315
Kang Y, Kuybeda O, de Waal PW, Mukherjee S, Van Eps N, Dutka P, Zhou XE, Bartesaghi A, Erramilli S, Morizumi T, Gu X, Yin Y, Liu P, Jiang Y, Meng X, Zhao G, Melcher K, Ernst OP, Kossiakoff AA, Subramaniam S, Xu HE
Nature (2018) 558 pp. 553-558 [ Pubmed: 29899450 DOI: doi:10.1038/s41586-018-0215-y ]
- 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 Rattus norvegicus)
- Fab light chain (23 kDa, Protein from synthetic construct)
- Protein complex of rhodopsin with galphai (180 MDa, Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- Chimera protein of soluble cytochrome b562 and rhodopsin (52 kDa, Protein from Homo sapiens)
- Fab heavy chain (25 kDa, Protein from synthetic construct)