Cryo-EM structure of human NTCP-Bulevirtide complex
Resolution: 3.41 Å
EM Method: Single-particle
Fitted PDBs: 8rqf
Q-score: 0.492
Liu H, Zakrzewicz D, Nosol K, Irobalieva RN, Mukherjee S, Bang-Sorensen R, Goldmann N, Kunz S, Rossi L, Kossiakoff AA, Urban S, Glebe D, Geyer J, Locher KP
Nat Commun (2024) 15 pp. 2476-2476 [ DOI: doi:10.1038/s41467-024-46706-w Pubmed: 38509088 ]
- Heavy chain of fab3 (25 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Polymerase (5 kDa, Protein from hepatitis B virus genotype C)
- Fab-specific nanobody (13 kDa, Protein from Lama glama)
- Sodium/bile acid cotransporter (38 kDa, Protein from Homo sapiens)
- N-tetradecanoylglycine (285 Da, Ligand)
- Light chain of fab3 (23 kDa, Protein from Homo sapiens)
- Structure of bulevirtide-bound human ntcp in complex with fab and nanobody (110 kDa, Complex from Homo sapiens)
Vanadate-trapped BSEP in nanodiscs
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8pmj
Q-score: 0.59
Liu H, Irobalieva RN, Kowal J, Ni D, Nosol K, Bang-Sorensen R, Lancien L, Stahlberg H, Stieger B, Locher KP
Nat Commun (2023) 14 pp. 7296-7296 [ DOI: doi:10.1038/s41467-023-43109-1 Pubmed: 37949847 ]
- Vanadate-trapped bsep in nanodiscs (146 kDa, Complex from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Vanadate ion (114 Da, Ligand)
- Bile salt export pump (146 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Water (18 Da, Ligand)
Human bile salt export pump (BSEP) in complex with inhibitor GBM in nanodiscs
Resolution: 3.22 Å
EM Method: Single-particle
Fitted PDBs: 8pm6
Q-score: 0.428
Liu H, Irobalieva RN, Kowal J, Ni D, Nosol K, Bang-Sorensen R, Lancien L, Stahlberg H, Stieger B, Locher KP
Nat Commun (2023) 14 pp. 7296-7296 [ DOI: doi:10.1038/s41467-023-43109-1 Pubmed: 37949847 ]
- The complex of bsep with inhibitor gbm (146 kDa, Complex from Homo sapiens)
- Bile salt export pump (146 kDa, Protein from Homo sapiens)
- 5-chloro-n-(2-{4-[(cyclohexylcarbamoyl)sulfamoyl]phenyl}ethyl)-2-methoxybenzamide (494 Da, Ligand)
- Cholesterol (386 Da, Ligand)
Nucleotide-bound BSEP in nanodiscs
Resolution: 2.95 Å
EM Method: Single-particle
Fitted PDBs: 8pmd
Q-score: 0.519
Liu H, Irobalieva RN, Kowal J, Ni D, Nosol K, Bang-Sorensen R, Lancien L, Stahlberg H, Stieger B, Locher KP
Nat Commun (2023) 14 pp. 7296-7296 [ DOI: doi:10.1038/s41467-023-43109-1 Pubmed: 37949847 ]
- Bile salt export pump (146 kDa, Protein from Homo sapiens)
- Nucleotide-bound bsep in nanodiscs (146 kDa, Complex from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
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 ]
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- Synthetic octapeptide wehi 1886493 (821 Da, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
- C-mannosyltransferase cedpy19, in complex with acceptor peptide and bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
- Water (18 Da, Ligand)
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 ]
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Anti-fab nanobody (13 kDa, Protein from synthetic construct)
- Cmt2-fab light chain (23 kDa, Protein from synthetic construct)
- Water (18 Da, Ligand)
- C-mannosyltransferase cedpy19, in apo state, bound to cmt2-fab and anti-fab nanobody (Complex from Caenorhabditis elegans)
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 ]
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- 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)
- Water (18 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 ]
- C-mannosyltransferase dpy-19 (80 kDa, Protein from Caenorhabditis elegans)
- Cmt2-fab heavy chain (25 kDa, Protein from synthetic construct)
- Anti-fab nanobody (13 kDa, 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)
- Synthetic octapeptide wehi 1886493 (821 Da, 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)
- Water (18 Da, Ligand)
Structure of yeast oligosaccharylransferase complex with lipid-linked oligosaccharide bound
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8agb
Q-score: 0.553
Ramirez AS, de Capitani M, Pesciullesi G, Kowal J, Bloch JS, Irobalieva RN, Reymond JL, Aebi M, Locher KP
Nat Commun (2022) 13 pp. 7296-7296 [ DOI: doi:10.1038/s41467-022-35067-x Pubmed: 36435935 ]
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit swp1 (31 kDa, Protein from Saccharomyces cerevisiae)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Phosphono [(3~{r},6~{e},10~{e})-3,7,11,15-tetramethylhexadeca-6,10,14-trienyl] hydrogen phosphate (452 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit wbp1 (49 kDa, Protein from Saccharomyces cerevisiae)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit ost4 (6 kDa, Protein from Saccharomyces cerevisiae)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1 (54 kDa, Protein from Saccharomyces cerevisiae)
- 1-palmitoyl-2-linoleoyl-sn-glycero-3-phosphocholine (758 Da, Ligand)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit ost5 (9 kDa, Protein from Saccharomyces cerevisiae)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit ost2 (14 kDa, Protein from Saccharomyces cerevisiae)
- Manganese (ii) ion (54 Da, Ligand)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit stt3 (81 kDa, Protein from Saccharomyces cerevisiae)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 3 (39 kDa, Protein from Saccharomyces cerevisiae)
- Yeast ost complex with lipid-linked oligosaccharide bound (284 kDa, Complex from Saccharomyces cerevisiae)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8agc
Q-score: 0.548
Ramirez AS, de Capitani M, Pesciullesi G, Kowal J, Bloch JS, Irobalieva RN, Reymond JL, Aebi M, Locher KP
Nat Commun (2022) 13 pp. 7296-7296 [ DOI: doi:10.1038/s41467-022-35067-x Pubmed: 36435935 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 (31 kDa, Protein from Saccharomyces cerevisiae)
- Dolichyl-diphosphooligosaccharide--protein glycotransferase (81 kDa, Protein from Saccharomyces cerevisiae)
- Phosphono [(3~{r},6~{e},10~{e})-3,7,11,15-tetramethylhexadeca-6,10,14-trienyl] hydrogen phosphate (452 Da, Ligand)
- 2-[3,6-bis(dimethylamino)xanthen-9-yl]-5-methanoyl-benzoate (414 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit wbp1 (49 kDa, Protein from Saccharomyces cerevisiae)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1 (54 kDa, Protein from Saccharomyces cerevisiae)
- Peptide (682 Da, Protein from Saccharomyces cerevisiae)
- 1-palmitoyl-2-linoleoyl-sn-glycero-3-phosphocholine (758 Da, Ligand)
- Ost4 isoform 1 (6 kDa, Protein from Saccharomyces cerevisiae)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit ost5 (9 kDa, Protein from Saccharomyces cerevisiae)
- Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit ost2 (14 kDa, Protein from Saccharomyces cerevisiae)
- Manganese (ii) ion (54 Da, Ligand)
- Yeast ost complex with lipid-linked oligosaccharide and non-acceptor peptide bound (284 kDa, Complex from Saccharomyces cerevisiae)
- Ost3 isoform 1 (39 kDa, Protein from Saccharomyces cerevisiae)