Sodium pumping NADH-quinone oxidoreductase with substrates NADH and Q2
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8a1u
Q-score: 0.558
Hau JL, Kaltwasser S, Muras V, Casutt MS, Vohl G, Claussen B, Steffen W, Leitner A, Bill E, Cutsail 3rd GE, DeBeer S, Vonck J, Steuber J, Fritz G
Nat Struct Mol Biol (2023) 30 pp. 1686-1694 [ Pubmed: 37710014 DOI: doi:10.1038/s41594-023-01099-0 ]
- Riboflavin (376 Da, Ligand)
- Water (18 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit b (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit f (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit d (22 kDa, Protein from Vibrio cholerae)
- Ubiquinone-2 (318 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit a (51 kDa, Protein from Vibrio cholerae)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- 1,4-dihydronicotinamide adenine dinucleotide (665 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit c (27 kDa, Protein from Vibrio cholerae)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nqr complex with substrates nadh and q2 (220 kDa, Complex from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit e (21 kDa, Protein from Vibrio cholerae)
Sodium pumping NADH-quinone oxidoreductase
Resolution: 3.37 Å
EM Method: Single-particle
Fitted PDBs: 8a1t
Q-score: 0.452
Hau JL, Kaltwasser S, Muras V, Casutt MS, Vohl G, Claussen B, Steffen W, Leitner A, Bill E, Cutsail 3rd GE, DeBeer S, Vonck J, Steuber J, Fritz G
Nat Struct Mol Biol (2023) 30 pp. 1686-1694 [ DOI: doi:10.1038/s41594-023-01099-0 Pubmed: 37710014 ]
- Na(+)-translocating nadh-quinone reductase subunit b (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit d (22 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit f (45 kDa, Protein from Vibrio cholerae)
- Riboflavin (376 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit e (21 kDa, Protein from Vibrio cholerae)
- Flavin mononucleotide (456 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit a (48 kDa, Protein from Vibrio cholerae)
- Nqr complex (220 kDa, Complex from Vibrio cholerae)
- Sodium ion (22 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit c (27 kDa, Protein from Vibrio cholerae)
Sodium pumping NADH-quinone oxidoreductase with substrate Q2
Resolution: 2.73 Å
EM Method: Single-particle
Fitted PDBs: 8a1v
Q-score: 0.54
Hau JL, Kaltwasser S, Muras V, Casutt MS, Vohl G, Claussen B, Steffen W, Leitner A, Bill E, Cutsail 3rd GE, DeBeer S, Vonck J, Steuber J, Fritz G
Nat Struct Mol Biol (2023) 30 pp. 1686-1694 [ Pubmed: 37710014 DOI: doi:10.1038/s41594-023-01099-0 ]
- Riboflavin (376 Da, Ligand)
- Water (18 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit b (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit f (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit d (22 kDa, Protein from Vibrio cholerae)
- Ubiquinone-2 (318 Da, Ligand)
- Flavin mononucleotide (456 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit a (51 kDa, Protein from Vibrio cholerae)
- Nqr complex with substrate q2 (220 kDa, Complex from Vibrio cholerae)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit c (27 kDa, Protein from Vibrio cholerae)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit e (21 kDa, Protein from Vibrio cholerae)
Sodium pumping NADH-quinone oxidoreductase with substrate Q1
Resolution: 2.56 Å
EM Method: Single-particle
Fitted PDBs: 8a1w
Q-score: 0.555
Hau JL, Kaltwasser S, Muras V, Casutt MS, Vohl G, Claussen B, Steffen W, Leitner A, Bill E, Cutsail 3rd GE, DeBeer S, Vonck J, Steuber J, Fritz G
Nat Struct Mol Biol (2023) 30 pp. 1686-1694 [ DOI: doi:10.1038/s41594-023-01099-0 Pubmed: 37710014 ]
- Ubiquinone-1 (250 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit b (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit c (27 kDa, Protein from Vibrio cholerae)
- Water (18 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit d (22 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit f (45 kDa, Protein from Vibrio cholerae)
- Riboflavin (376 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit a (51 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit e (21 kDa, Protein from Vibrio cholerae)
- Flavin mononucleotide (456 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Nqr complex with substrate q1 (220 kDa, Complex from Vibrio cholerae)
Sodium pumping NADH-quinone oxidoreductase with inhibitor DQA
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8a1x
Q-score: 0.467
Hau JL, Kaltwasser S, Muras V, Casutt MS, Vohl G, Claussen B, Steffen W, Leitner A, Bill E, Cutsail 3rd GE, DeBeer S, Vonck J, Steuber J, Fritz G
Nat Struct Mol Biol (2023) 30 pp. 1686-1694 [ Pubmed: 37710014 DOI: doi:10.1038/s41594-023-01099-0 ]
- Riboflavin (376 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit b (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit f (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit d (22 kDa, Protein from Vibrio cholerae)
- Flavin mononucleotide (456 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit a (48 kDa, Protein from Vibrio cholerae)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit c (27 kDa, Protein from Vibrio cholerae)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nqr complex with inhibitor dqa (220 kDa, Complex from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit e (21 kDa, Protein from Vibrio cholerae)
Sodium pumping NADH-quinone oxidoreductase with inhibitor HQNO
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8a1y
Q-score: 0.426
Hau JL, Kaltwasser S, Muras V, Casutt MS, Vohl G, Claussen B, Steffen W, Leitner A, Bill E, Cutsail 3rd GE, DeBeer S, Vonck J, Steuber J, Fritz G
Nat Struct Mol Biol (2023) 30 pp. 1686-1694 [ Pubmed: 37710014 DOI: doi:10.1038/s41594-023-01099-0 ]
- Riboflavin (376 Da, Ligand)
- 2-heptyl-4-hydroxy quinoline n-oxide (259 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit b (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit f (45 kDa, Protein from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit d (22 kDa, Protein from Vibrio cholerae)
- Flavin mononucleotide (456 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit a (51 kDa, Protein from Vibrio cholerae)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Na(+)-translocating nadh-quinone reductase subunit c (27 kDa, Protein from Vibrio cholerae)
- Nqr complex with inhibitor hqno (220 kDa, Complex from Vibrio cholerae)
- Na(+)-translocating nadh-quinone reductase subunit e (21 kDa, Protein from Vibrio cholerae)
Human cap-dependent 48S pre-initiation complex
Resolution: 6.3 Å
EM Method: Single-particle
Fitted PDBs: 6fec
Q-score: 0.116
Eliseev B, Yeramala L, Leitner A, Karuppasamy M, Raimondeau E, Huard K, Alkalaeva E, Aebersold R, Schaffitzel C
Nucleic Acids Res (2018) 46 pp. 2678-2689 [ Pubmed: 29401259 DOI: doi:10.1093/nar/gky054 ]
- 18s ribosomal rna (572 kDa, RNA from Homo sapiens)
- Eukaryotic translation initiation factor 2 beta subunit (eif2-beta) (2 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (21 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 1 (30 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 4b (Complex from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (8 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (15 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit d (42 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (8 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 3 (45 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (27 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (23 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (23 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (16 kDa, Protein from Homo sapiens)
- Messenger rna (26-mer) (8 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s3a (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit c (97 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (11 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 4b (72 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Eukaryotic translation initiation factor 3 subunit e (52 kDa, Protein from Homo sapiens)
- Mrna (Complex from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit f (37 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (25 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (13 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit k (25 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit a (164 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit l (66 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (34 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- Transfer rna (75-mer) (24 kDa, RNA from Homo sapiens)
- Human cap-dependent 48s translation pre-initiation complex (2 MDa, Complex)
- Eukaryotic translation initiation factor 3 subunit h (39 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s20 (11 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (11 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit b (124 kDa, Protein from Homo sapiens)
- Human cap-dependent 48s translation pre-initiation complex (Complex from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit m (42 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (8 kDa, Protein from Homo sapiens)