Yeast V-ATPase Vo proton channel bound to nanobody 1WVA25
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 9e76
Q-score: 0.507
Knight K, Park JB, Oot RA, Khan MM, Roh SH, Wilkens S
bioRxiv (2025) [ DOI: doi:10.1101/2025.01.10.632502 Pubmed: 39829782 ]
- V-type proton atpase subunit d (39 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c' (17 kDa, Protein from Saccharomyces cerevisiae)
- V0 assembly protein 1 (29 kDa, Protein from Saccharomyces cerevisiae)
- Yeast v-atpase subunit f (9 kDa, Protein from Saccharomyces cerevisiae)
- Nanobody 1wva25 (16 kDa, Protein from Lama glama)
- V-type proton atpase subunit c (16 kDa, Protein from Saccharomyces cerevisiae)
- Yeast v-atpase vo proton channel subcomplex bound to nanobody 1wva25 (400 kDa, Complex from Saccharomyces cerevisiae)
- V-type proton atpase subunit a, vacuolar isoform (95 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit e (8 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c'' (22 kDa, Protein from Saccharomyces cerevisiae)
Yeast V-ATPase Vo proton channel bound to nanobody 2WVA7
Resolution: 3.33 Å
EM Method: Single-particle
Fitted PDBs: 9e7l
Q-score: 0.514
Knight K, Park JB, Oot RA, Khan MM, Roh SH, Wilkens S
bioRxiv (2025) [ DOI: doi:10.1101/2025.01.10.632502 Pubmed: 39829782 ]
- V-type proton atpase subunit c' (17 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit d (39 kDa, Protein from Saccharomyces cerevisiae)
- V0 assembly protein 1 (29 kDa, Protein from Saccharomyces cerevisiae)
- Yeast v-atpase subunit f (9 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c (16 kDa, Protein from Saccharomyces cerevisiae)
- Yeast v-atpase vo proton channel bound to nanobody 2wva7 (540 kDa, Complex from Saccharomyces cerevisiae)
- V-type proton atpase subunit a, vacuolar isoform (95 kDa, Protein from Saccharomyces cerevisiae)
- Nanobody 2wva7 (14 kDa, Protein from Lama glama)
- V-type proton atpase subunit e (8 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c'' (22 kDa, Protein from Saccharomyces cerevisiae)
Yeast V-ATPase Vo proton channel bound to nanobody 2WVA149
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 9mj4
Q-score: 0.455
Knight K, Park JB, Oot RA, Khan MM, Roh SH, Wilkens S
bioRxiv (2025) [ DOI: doi:10.1101/2025.01.10.632502 Pubmed: 39829782 ]
- V-type proton atpase subunit c' (17 kDa, Protein from Saccharomyces cerevisiae)
- V0 assembly protein 1 (29 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit d (39 kDa, Protein from Saccharomyces cerevisiae)
- Yeast v-atpase subunit f (9 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit c (16 kDa, Protein from Saccharomyces cerevisiae)
- Yeast v-atpase vo proton channel subcomplex bound to nanobody 2wva149 (400 kDa, Complex from Saccharomyces cerevisiae)
- V-type proton atpase subunit a, vacuolar isoform (95 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit e (8 kDa, Protein from Saccharomyces cerevisiae)
- Nanobody 2wva149 (15 kDa, Protein from Lama glama)
- V-type proton atpase subunit c'' (22 kDa, Protein from Saccharomyces cerevisiae)
Paused elongation complex of mammalian RNA polymerase II with nucleosome (PEC2-nuc)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 9j0n
Q-score: 0.316
Naganuma M, Kujirai T, Ehara H, Uejima T, Ito T, Goto M, Aoki M, Henmi M, Miyamoto-Kohno S, Shirouzu M, Kurumizaka H, Sekine S
Sci Adv (2025) [ DOI: doi:10.1126/sciadv.adu0577 ]
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Negative elongation factor (nelf) (Complex from Homo sapiens)
- Negative elongation factor a (57 kDa, Protein from Homo sapiens)
- Rna polymerase ii in complex with dsif, nelf, and nucleosome (Complex)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Negative elongation factor c/d (68 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt5 (123 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Negative elongation factor b (65 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (13 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- Transcription elongation factor a protein 1 (34 kDa, Protein from Homo sapiens)
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Spt4 and spt5 (Complex from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Template dna (168-mer) (60 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb3 (30 kDa, Protein from Sus scrofa)
- Non-template dna (157-mer) (61 kDa, DNA from Homo sapiens)
- Rna polymerase ii (Complex from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Negative elongation factor e (45 kDa, Protein from Homo sapiens)
- Rna (5'-r(p*up*gp*gp*gp*up*gp*gp*up*gp*gp*cp*c)-3') (13 kDa, RNA from Homo sapiens)
- Histone proteins (Complex from Homo sapiens)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Rpb12 (7 kDa, Protein from Sus scrofa)
Arrested elongation complex of mammalian RNA polymerase II with nucleosome (AEC1-nuc)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9j0o
Q-score: 0.313
Naganuma M, Kujirai T, Ehara H, Uejima T, Ito T, Goto M, Aoki M, Henmi M, Miyamoto-Kohno S, Shirouzu M, Kurumizaka H, Sekine S
Sci Adv (2025) [ DOI: doi:10.1126/sciadv.adu0577 ]
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Negative elongation factor (nelf) (Complex from Homo sapiens)
- Negative elongation factor a (57 kDa, Protein from Homo sapiens)
- Rna polymerase ii in complex with dsif, nelf, and nucleosome (Complex)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Negative elongation factor c/d (68 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt5 (123 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Negative elongation factor b (65 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (13 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Spt4 and spt5 (Complex from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb3 (30 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Negative elongation factor e (45 kDa, Protein from Homo sapiens)
- Histone proteins (Complex from Homo sapiens)
- Rna (5'-r(p*ap*ap*up*up*ap*gp*cp*up*cp*up*up*gp*up*gp*up*u)-3') (5 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Non-template dna (180-mer) (61 kDa, DNA from Homo sapiens)
- Template dna (191-mer) (60 kDa, DNA from Homo sapiens)
- Rpb12 (7 kDa, Protein from Sus scrofa)
Arrested elongation complex of mammalian RNA polymerase II with nucleosome (AEC2-nuc)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9j0p
Q-score: 0.311
Naganuma M, Kujirai T, Ehara H, Uejima T, Ito T, Goto M, Aoki M, Henmi M, Miyamoto-Kohno S, Shirouzu M, Kurumizaka H, Sekine S
Sci Adv (2025) [ DOI: doi:10.1126/sciadv.adu0577 ]
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Negative elongation factor (nelf) (Complex from Homo sapiens)
- Negative elongation factor a (57 kDa, Protein from Homo sapiens)
- Rna polymerase ii in complex with dsif, nelf, and nucleosome (Complex)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa)
- Negative elongation factor c/d (68 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt5 (123 kDa, Protein from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Negative elongation factor b (65 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (13 kDa, Protein from Homo sapiens)
- Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Sus scrofa)
- Histone h3.3 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Spt4 and spt5 (Complex from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase ii subunit rpb3 (30 kDa, Protein from Sus scrofa)
- Rna polymerase ii (Complex from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Negative elongation factor e (45 kDa, Protein from Homo sapiens)
- Histone proteins (Complex from Homo sapiens)
- Rna (5'-r(p*ap*ap*up*up*ap*gp*cp*up*cp*up*up*gp*up*gp*up*u)-3') (5 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from Sus scrofa)
- Non-template dna (180-mer) (61 kDa, DNA from Homo sapiens)
- Template dna (191-mer) (60 kDa, DNA from Homo sapiens)
- Rpb12 (7 kDa, Protein from Sus scrofa)
Yeast RAVE bound to V-ATPase V1 complex
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9cop
Q-score: 0.252
Wang H, Tarsio M, Kane PM, Rubinstein JL
PNAS (2024) 121 pp. e2414511121-e2414511121 [ Pubmed: 39625975 DOI: doi:10.1073/pnas.2414511121 ]
- V-type proton atpase subunit b (57 kDa, Protein from Saccharomyces cerevisiae)
- Regulator of v-atpase in vacuolar membrane protein 2 (40 kDa, Protein from Saccharomyces cerevisiae)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Suppressor of kinetochore protein 1 (22 kDa, Protein from Saccharomyces cerevisiae)
- Yeast rave bound to v-atpase v1 complex (Complex from Saccharomyces cerevisiae)
- V-type proton atpase subunit g (12 kDa, Protein from Saccharomyces cerevisiae)
- Regulator of v-atpase in vacuolar membrane protein 1 (155 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit d (29 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- V-type proton atpase subunit h (54 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase catalytic subunit a (118 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit f (13 kDa, Protein from Saccharomyces cerevisiae)
- V-type proton atpase subunit e (26 kDa, Protein from Saccharomyces cerevisiae)
Respiratory complex I from Paracoccus denitrificans in MSP2N2 nanodiscs
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8qby
Q-score: 0.683
Ivanov BS, Bridges HR, Hirst J, Jarman OD
To Be Published
- Respiratory complex i (Complex from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit n (52 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh dehydrogenase subunit m (56 kDa, Protein from Paracoccus denitrificans PD1222)
- Etc complex i subunit conserved region (12 kDa, Protein from Paracoccus denitrificans PD1222)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Nadh-quinone oxidoreductase chain 10 (21 kDa, Protein from Paracoccus denitrificans PD1222)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Nadh-quinone oxidoreductase (73 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit f (47 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh dehydrogenase subunit l (77 kDa, Protein from Paracoccus denitrificans PD1222)
- Water (18 Da, Ligand)
- Nadh-quinone oxidoreductase subunit h (38 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit d (46 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit i (18 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh:ubiquinone oxidoreductase 17.2 kd subunit (14 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit k (10 kDa, Protein from Paracoccus denitrificans PD1222)
- Ubiquinone-10 (863 Da, Ligand)
- Nadh-quinone oxidoreductase subunit c (23 kDa, Protein from Paracoccus denitrificans PD1222)
- Zinc ion (65 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand)
- Protein-l-isoaspartate o-methyltransferase (23 kDa, Protein from Paracoccus denitrificans PD1222)
- Sodium ion (22 Da, Ligand)
- Zinc finger chcc-type domain-containing protein (7 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit a (13 kDa, Protein from Paracoccus denitrificans PD1222)
- Iron/sulfur cluster (351 Da, Ligand)
- Nadh-quinone oxidoreductase subunit b (19 kDa, Protein from Paracoccus denitrificans PD1222)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase subunit e (26 kDa, Protein from Paracoccus denitrificans PD1222)
The structure of human Pdcd4 bound to the 40S-eIF4A-eIF3-eIF1 complex
Brito Querido J, Sokabe M, Diaz-Lopez I, Gordiyenko Y, Zuber P, Du Y, Albacete-Albacete L, Ramakrishnan V, Fraser CS
Nat Commun (2024) 15 pp. 6633-6633 [ Pubmed: 39117603 DOI: doi:10.1038/s41467-024-50672-8 ]
- Small ribosomal subunit protein es17 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es26 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us19 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es19 (16 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit c (105 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us17 (18 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 1 (12 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es8 (24 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit b (77 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es24 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us2 (32 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es10 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit m (42 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es25 (13 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit g (35 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es30 (6 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es1 (30 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es12 (14 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit k (25 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Homo sapiens)
- Rrna (555 kDa, RNA from Homo sapiens)
- Small ribosomal subunit protein us12 (15 kDa, Protein from Homo sapiens)
- Pdcd4-40s-eif4a-eif3-eif1 complex (2 MDa, Complex from Homo sapiens)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es21 (9 kDa, Protein from Homo sapiens)
- Eukaryotic initiation factor 4a-i (44 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit l (66 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es4, x isoform (29 kDa, Protein from Homo sapiens)
- Programmed cell death protein 4 (52 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit e (52 kDa, Protein from Homo sapiens)
- Spermidine (145 Da, Ligand)
- Small ribosomal subunit protein es32 (3 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us15 (17 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit d (64 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us13 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us14 (6 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit f (37 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Acetic acid (60 Da, Ligand)
- Small ribosomal subunit protein es6 (28 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Small ribosomal subunit protein us5 (31 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es27 (9 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us4 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es28 (7 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit h (39 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us10 (13 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit i (36 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit a (166 kDa, Protein from Homo sapiens)
N5-methyl-H4MPT:CoM methyltransferase -coenzyme M complex + CoM
Aziz I, Kayastha K, Kaltwasser S, Vonck J, Welsch S, Murohy BJ, Kahnt J, Wu D, Wagner T, Shima S, Ermler U
To Be Published
- Tetrahydromethanopterin s-methyltransferase subunit b (10 kDa, Protein from Methanothermobacter marburgensis)
- 1-thioethanesulfonic acid (142 Da, Ligand)
- Tetrahydromethanopterin s-methyltransferase subunit e (31 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit a 1 (25 kDa, Protein from Methanothermobacter marburgensis)
- Sodium ion (22 Da, Ligand)
- Methyl-h4mpt:com methyltransferase (430 MDa, Complex from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit c (27 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit f (7 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit d (22 kDa, Protein from Methanothermobacter marburgensis)
- Magnesium ion (24 Da, Ligand)
- Tetrahydromethanopterin s-methyltransferase subunit g (9 kDa, Protein from Methanothermobacter marburgensis)
- Water (18 Da, Ligand)
- [(2~{s},7~{r},11~{r},15~{s},19~{s},22~{s},26~{s},30~{r},34~{r},39~{s},43~{r},47~{r},51~{s},55~{s},58~{s},62~{s},66~{r},70~{r})-39-[[(2~{r},3~{r},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]-7,11,15,19,22,26,30,34,43,47,51,55,58,62,66,70-hexadecamethyl-1,4,37,40-tetraoxacyclodoheptacont-2-yl]methyl [(2~{r},3~{s},5~{r},6~{r})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl] hydrogen phosphate (1 kDa, Ligand)