Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (Map C1)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6fyx
Q-score: 0.314
Llacer JL, Hussain T, Saini AK, Nanda JD, Kaur S, Gordiyenko Y, Kumar R, Hinnebusch AG, Lorsch JR, Ramakrishnan V
eLife (2018) 7 [ Pubmed: 30475211 DOI: doi:10.7554/eLife.39273 ]
- 40s ribosomal protein s0 (28 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s27 (8 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s7 (21 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0e23673p (21 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0b08173p (12 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s4 (29 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s26 (13 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0b11231p (16 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Mrna (31-mer) (15 kDa, RNA from Saccharomyces cerevisiae)
- Phosphomethylphosphonic acid guanylate ester (521 Da, Ligand)
- Klla0d10659p (25 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0a10483p (17 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Zinc ion (65 Da, Ligand)
- Klla0f07843p (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Initialtion factors (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ribosome (Complex from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0f18040p (16 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 60s ribosomal protein l41-a (3 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 2 subunit alpha (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Klla0b01562p (17 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0b06182p (12 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Trna (Complex from Saccharomyces cerevisiae)
- 40s ribosomal protein s1 (29 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0a07194p (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s22 (14 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s8 (22 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s14 (14 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s24 (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s6 (26 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Mrna (Complex from Saccharomyces cerevisiae)
- Klla0f25542p (13 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0f09812p (27 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Methionine (149 Da, Ligand)
- Eukaryotic translation initiation factor 2 subunit gamma (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Eukaryotic translation initiation factor 3 subunit a (110 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubiquitin-40s ribosomal protein s27a (17 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Trnai (24 kDa, RNA from Saccharomyces cerevisiae)
- Initiation factors (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 40s ribosomal protein s30 (7 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 5 (45 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 40s ribosomal protein s12 (14 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Structure of a partial yeast 48s preinitiation complex with eif5 n-terminal domain (model c1) (1 MDa, Complex)
- Klla0b01474p (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s28 (7 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 2 subunit beta (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Eukaryotic translation initiation factor 3 subunit g (30 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Eukaryotic translation initiation factor 3 subunit i (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 40s ribosomal protein s29 (6 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s16 (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 18s ribosomal rna (579 kDa, RNA from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 1a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Magnesium ion (24 Da, Ligand)
- Klla0d08305p (26 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0e12277p (35 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eif3c,eif3c (86 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Eukaryotic translation initiation factor 3 subunit b (88 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 40s ribosomal protein s21 (9 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (Map 1)
Resolution: 3.02 Å
EM Method: Single-particle
Fitted PDBs: 6fyy
Q-score: 0.378
Llacer JL, Hussain T, Saini AK, Nanda JD, Kaur S, Gordiyenko Y, Kumar R, Hinnebusch AG, Lorsch JR, Ramakrishnan V
eLife (2018) 7 [ Pubmed: 30475211 DOI: doi:10.7554/eLife.39273 ]
- 40s ribosomal protein s0 (28 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s27 (8 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s7 (21 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0e23673p (21 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0b08173p (12 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Trnai (24 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s4 (29 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s26 (13 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0b11231p (16 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Mrna (31-mer) (15 kDa, RNA from Saccharomyces cerevisiae)
- Eukaryotic translation initiation factor 3 subunit a (110 kDa, Protein from Saccharomyces cerevisiae)
- Phosphomethylphosphonic acid guanylate ester (521 Da, Ligand)
- Klla0d10659p (25 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0a10483p (17 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Zinc ion (65 Da, Ligand)
- Klla0f07843p (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Ribosome (Complex from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0f18040p (16 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 60s ribosomal protein l41-a (3 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0b01562p (17 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0b06182p (12 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Trna (Complex from Saccharomyces cerevisiae)
- 40s ribosomal protein s1 (29 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0a07194p (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s22 (14 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Structure of a partial yeast 48s preinitiation complex with eif5 n-terminal domain (model c2) (1 MDa, Complex)
- 40s ribosomal protein s8 (22 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s14 (14 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s24 (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 3 subunit i (38 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s6 (26 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Mrna (Complex from Saccharomyces cerevisiae)
- Klla0f25542p (13 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 2 subunit beta (31 kDa, Protein from Saccharomyces cerevisiae)
- Klla0f09812p (27 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Methionine (149 Da, Ligand)
- Initiation factors (Complex from Saccharomyces cerevisiae)
- Ubiquitin-40s ribosomal protein s27a (17 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s30 (7 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 5 (45 kDa, Protein from Saccharomyces cerevisiae)
- Eukaryotic translation initiation factor 3 subunit b (88 kDa, Protein from Saccharomyces cerevisiae)
- Eukaryotic translation initiation factor 3 subunit g (30 kDa, Protein from Saccharomyces cerevisiae)
- Eukaryotic translation initiation factor 1a (17 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s12 (14 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Klla0b01474p (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s28 (7 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eif3c,eukaryotic translation initiation factor 3 subunit c (86 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s29 (6 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 40s ribosomal protein s16 (15 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- 18s ribosomal rna (579 kDa, RNA from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Magnesium ion (24 Da, Ligand)
- Klla0d08305p (26 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 2 subunit alpha (34 kDa, Protein from Saccharomyces cerevisiae)
- Klla0e12277p (35 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
- Eukaryotic translation initiation factor 2 subunit gamma (57 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s21 (9 kDa, Protein from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))