› 4u52

X-ray diffraction
3Å resolution

Crystal structure of Nagilactone C bound to the yeast 80S ribosome

Released:
DOI: 10.2210/pdb4u52/pdb
PDB entry 4u52 coloured by chain, front view.
PDB entry 4u52 coloured by chain, side view.
PDB entry 4u52 coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Structural basis for the inhibition of the eukaryotic ribosome.
Garreau de Loubresse N, Prokhorova I, Holtkamp W, Rodnina MV, Yusupova G, Yusupov M
Nature 513 517-22 (2014)
PMID: 25209664

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
hetero 79-mer
hetero 83-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-219098 (preferred)
Entry contents:
80 distinct polypeptide molecules
4 distinct RNA molecules
Macromolecules (84 distinct):
Small ribosomal subunit protein uS2A Chains: S0, s0
Molecule details ›
Chains: S0, s0
Length: 251 amino acids
Theoretical weight: 27.92 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32905 (Residues: 2-252; Coverage: 100%)
Gene names: NAB1, NAB1A, RPS0A, YGR214W, YST1
Sequence domains: Ribosomal protein S2
Small ribosomal subunit protein eS1A Chains: S1, s1
Molecule details ›
Chains: S1, s1
Length: 254 amino acids
Theoretical weight: 28.67 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P33442 (Residues: 2-255; Coverage: 100%)
Gene names: L9753.9, PLC1, RPS10A, RPS1A, YLR441C
Sequence domains: Ribosomal S3Ae family
Small ribosomal subunit protein uS5 Chains: S2, s2
Molecule details ›
Chains: S2, s2
Length: 253 amino acids
Theoretical weight: 27.36 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P25443 (Residues: 2-254; Coverage: 100%)
Gene names: G2893, RPS2, RPS4, SUP38, SUP44, YGL123W
Sequence domains:
Small ribosomal subunit protein uS3 Chains: S3, s3
Molecule details ›
Chains: S3, s3
Length: 239 amino acids
Theoretical weight: 26.41 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05750 (Residues: 2-240; Coverage: 100%)
Gene names: N1653, RPS3, SUF14, YNL178W
Sequence domains:
Small ribosomal subunit protein eS4A Chains: S4, s4
Molecule details ›
Chains: S4, s4
Length: 260 amino acids
Theoretical weight: 29.34 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX35 (Residues: 2-261; Coverage: 100%)
Gene names: J2186, RPS4A, RPS7B, YJR145C
Sequence domains:
Small ribosomal subunit protein uS7 Chains: S5, s5
Molecule details ›
Chains: S5, s5
Length: 224 amino acids
Theoretical weight: 24.94 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P26783 (Residues: 2-225; Coverage: 100%)
Gene names: J2045, RPS2, RPS5, YJR123W
Sequence domains: Ribosomal protein S7p/S5e
Small ribosomal subunit protein eS6A Chains: S6, s6
Molecule details ›
Chains: S6, s6
Length: 236 amino acids
Theoretical weight: 27.05 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX37 (Residues: 1-236; Coverage: 100%)
Gene names: LPG18C, RPS101, RPS10B, RPS6A, YPL090C
Sequence domains: Ribosomal protein S6e
Small ribosomal subunit protein eS7A Chains: S7, s7
Molecule details ›
Chains: S7, s7
Length: 189 amino acids
Theoretical weight: 21.53 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P26786 (Residues: 2-190; Coverage: 100%)
Gene names: RPS30, RPS7A, YOR096W, YOR3177W
Sequence domains: Ribosomal protein S7e
Small ribosomal subunit protein eS8A Chains: S8, s8
Molecule details ›
Chains: S8, s8
Length: 200 amino acids
Theoretical weight: 22.54 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX39 (Residues: 1-200; Coverage: 100%)
Gene names: RPS14A, RPS8A, YBL06.05, YBL0613, YBL072C
Sequence domains: Ribosomal protein S8e
Small ribosomal subunit protein uS4A Chains: S9, s9
Molecule details ›
Chains: S9, s9
Length: 196 amino acids
Theoretical weight: 22.36 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: O13516 (Residues: 2-197; Coverage: 100%)
Gene names: RPS13A, RPS9A, YPL081W, YS11A
Sequence domains:
Small ribosomal subunit protein eS10A Chains: C0, c0
Molecule details ›
Chains: C0, c0
Length: 105 amino acids
Theoretical weight: 12.77 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q08745 (Residues: 1-105; Coverage: 100%)
Gene names: RPS10A, YOR293W
Sequence domains: Plectin/S10 domain
Small ribosomal subunit protein uS17A Chains: C1, c1
Molecule details ›
Chains: C1, c1
Length: 155 amino acids
Theoretical weight: 17.65 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX47 (Residues: 2-156; Coverage: 99%)
Gene names: RPS11A, RPS18A, YD9813.03, YDR025W
Sequence domains:
Small ribosomal subunit protein eS12 Chains: C2, c2
Molecule details ›
Chains: C2, c2
Length: 142 amino acids
Theoretical weight: 15.39 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P48589 (Residues: 2-143; Coverage: 99%)
Gene names: RPS12, YOR369C
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Small ribosomal subunit protein uS15 Chains: C3, c3
Molecule details ›
Chains: C3, c3
Length: 150 amino acids
Theoretical weight: 16.93 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05756 (Residues: 2-151; Coverage: 99%)
Gene names: D4252, RPS13, RPS13C, YD9609.18, YDR064W
Sequence domains:
Small ribosomal subunit protein uS11A Chains: C4, c4
Molecule details ›
Chains: C4, c4
Length: 136 amino acids
Theoretical weight: 14.43 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P06367 (Residues: 2-137; Coverage: 99%)
Gene names: CRY1, RPL59, RPS14A, YCR031C, YCR31C
Sequence domains: Ribosomal protein S11
Small ribosomal subunit protein uS19 Chains: C5, c5
Molecule details ›
Chains: C5, c5
Length: 141 amino acids
Theoretical weight: 15.83 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q01855 (Residues: 2-142; Coverage: 99%)
Gene names: RPS15, RPS21, YOL040C
Sequence domains: Ribosomal protein S19
Small ribosomal subunit protein uS9A Chains: C6, c6
Molecule details ›
Chains: C6, c6
Length: 142 amino acids
Theoretical weight: 15.75 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX51 (Residues: 2-143; Coverage: 99%)
Gene names: RP61R, RPS16A, YM9375.12, YMR143W
Sequence domains: Ribosomal protein S9/S16
Small ribosomal subunit protein eS17A Chains: C7, c7
Molecule details ›
Chains: C7, c7
Length: 136 amino acids
Theoretical weight: 15.82 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P02407 (Residues: 1-136; Coverage: 100%)
Gene names: RP51A, RPS17A, YML024W
Sequence domains: Ribosomal S17
Small ribosomal subunit protein uS13A Chains: C8, c8
Molecule details ›
Chains: C8, c8
Length: 145 amino acids
Theoretical weight: 16.94 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX55 (Residues: 2-146; Coverage: 99%)
Gene names: D9461.35, RPS18A, YDR450W
Sequence domains: Ribosomal protein S13/S18
Small ribosomal subunit protein eS19A Chains: C9, c9
Molecule details ›
Chains: C9, c9
Length: 143 amino acids
Theoretical weight: 15.81 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P07280 (Residues: 2-144; Coverage: 99%)
Gene names: RP55A, RPS16AA, RPS19A, YOL121C
Sequence domains: Ribosomal protein S19e
Small ribosomal subunit protein uS10 Chains: D0, d0
Molecule details ›
Chains: D0, d0
Length: 120 amino acids
Theoretical weight: 13.8 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38701 (Residues: 2-121; Coverage: 99%)
Gene names: RPS20, URP2, YHL015W
Sequence domains: Ribosomal protein S10p/S20e
Small ribosomal subunit protein eS21A Chains: D1, d1
Molecule details ›
Chains: D1, d1
Length: 87 amino acids
Theoretical weight: 9.76 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0C0V8 (Residues: 1-87; Coverage: 100%)
Gene names: RPS21A, RPS25, RPS25A, RPS26A, YKR057W
Sequence domains: Ribosomal protein S21e
Small ribosomal subunit protein uS8A Chains: D2, d2
Molecule details ›
Chains: D2, d2
Length: 129 amino acids
Theoretical weight: 14.52 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0C0W1 (Residues: 2-130; Coverage: 99%)
Gene names: J0355, RPS22A, RPS24, RPS24A, YJL190C
Sequence domains: Ribosomal protein S8
Small ribosomal subunit protein uS12A Chains: D3, d3
Molecule details ›
Chains: D3, d3
Length: 144 amino acids
Theoretical weight: 15.94 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX29 (Residues: 2-145; Coverage: 99%)
Gene names: G6178, RPS23A, RPS28A, YGR118W
Sequence domains: Ribosomal protein S12/S23
Small ribosomal subunit protein eS24A Chains: D4, d4
Molecule details ›
Chains: D4, d4
Length: 134 amino acids
Theoretical weight: 15.23 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX31 (Residues: 2-135; Coverage: 99%)
Gene names: RPS24A, RPS24EA, YER074W
Sequence domains: Ribosomal protein S24e
Small ribosomal subunit protein eS25A Chains: D5, d5
Molecule details ›
Chains: D5, d5
Length: 107 amino acids
Theoretical weight: 11.94 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q3E792 (Residues: 2-108; Coverage: 99%)
Gene names: RPS25A, RPS31A, YGR027C
Sequence domains: S25 ribosomal protein
Small ribosomal subunit protein eS26B Chains: D6, d6
Molecule details ›
Chains: D6, d6
Length: 97 amino acids
Theoretical weight: 11.02 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P39939 (Residues: 2-98; Coverage: 82%)
Gene names: RPS26B, YER131W
Sequence domains: Ribosomal protein S26e
Small ribosomal subunit protein eS27A Chains: D7, d7
Molecule details ›
Chains: D7, d7
Length: 81 amino acids
Theoretical weight: 8.76 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P35997 (Residues: 2-82; Coverage: 99%)
Gene names: RPS27A, YKL156W
Sequence domains: Ribosomal protein S27
Small ribosomal subunit protein eS28A Chains: D8, d8
Molecule details ›
Chains: D8, d8
Length: 66 amino acids
Theoretical weight: 7.47 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q3E7X9 (Residues: 2-67; Coverage: 99%)
Gene names: O3600, RPS28A, RPS33, RPS33A, YOR167C
Sequence domains: Ribosomal protein S28e
Small ribosomal subunit protein uS14A Chains: D9, d9
Molecule details ›
Chains: D9, d9
Length: 55 amino acids
Theoretical weight: 6.54 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P41057 (Residues: 2-56; Coverage: 98%)
Gene names: L8084.11, RPS29A, RPS36A, YLR388W, YS29A
Sequence domains: Ribosomal protein S14p/S29e
Small ribosomal subunit protein eS30A Chain: E0
Molecule details ›
Chain: E0
Length: 60 amino acids
Theoretical weight: 6.78 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX33 (Residues: 2-61; Coverage: 95%)
Gene names: L8003.23, RPS30A, YLR287BC, YLR287C-A
Sequence domains: Ribosomal protein S30
Small ribosomal subunit protein eS31 Chains: E1, e1
Molecule details ›
Chains: E1, e1
Length: 76 amino acids
Theoretical weight: 8.7 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05759 (Residues: 77-152; Coverage: 50%)
Gene names: L9470.14, RPS31, RPS37, UBI3, YLR167W
Sequence domains: Ribosomal protein S27a
Small ribosomal subunit protein RACK1 Chains: SR, sR
Molecule details ›
Chains: SR, sR
Length: 318 amino acids
Theoretical weight: 34.71 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38011 (Residues: 2-319; Coverage: 100%)
Gene names: ASC1, CPC2, YM9718.15C, YMR116C
Sequence domains: WD domain, G-beta repeat
Suppressor protein STM1 Chains: SM, sM
Molecule details ›
Chains: SM, sM
Length: 273 amino acids
Theoretical weight: 30.05 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P39015 (Residues: 1-273; Coverage: 100%)
Gene names: L9634.1, MPT4, STM1, STO1, YLR150W
Sequence domains: Stm1
Large ribosomal subunit protein uL2A Chains: L2, l2
Molecule details ›
Chains: L2, l2
Length: 253 amino acids
Theoretical weight: 27.33 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX45 (Residues: 2-254; Coverage: 100%)
Gene names: RPL2A, RPL5B, YFR031BC, YFR031C-A
Sequence domains:
Large ribosomal subunit protein uL3 Chains: L3, l3
Molecule details ›
Chains: L3, l3
Length: 386 amino acids
Theoretical weight: 43.72 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P14126 (Residues: 2-387; Coverage: 100%)
Gene names: MAK8, RPL3, TCM1, YOR063W, YOR29-14
Sequence domains: Ribosomal protein L3
Large ribosomal subunit protein uL4A Chains: L4, l4
Molecule details ›
Chains: L4, l4
Length: 361 amino acids
Theoretical weight: 39.03 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P10664 (Residues: 2-362; Coverage: 100%)
Gene names: RPL2, RPL2A, RPL4A, YBR0315, YBR031W
Sequence domains:
Large ribosomal subunit protein uL18 Chains: L5, l5
Molecule details ›
Chains: L5, l5
Length: 296 amino acids
Theoretical weight: 33.63 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P26321 (Residues: 2-297; Coverage: 100%)
Gene names: LPI14W, RPL1, RPL1A, RPL5, YPL131W
Sequence domains:
Large ribosomal subunit protein eL6A Chains: L6, l6
Molecule details ›
Chains: L6, l6
Length: 175 amino acids
Theoretical weight: 19.87 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q02326 (Residues: 2-176; Coverage: 99%)
Gene names: RPL17A, RPL6A, YL16A, YML073C
Sequence domains: Ribosomal protein L6e
Large ribosomal subunit protein uL30A Chains: L7, l7
Molecule details ›
Chains: L7, l7
Length: 243 amino acids
Theoretical weight: 27.56 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05737 (Residues: 2-244; Coverage: 100%)
Gene names: RPL6A, RPL7A, RPL8A, YGL076C, YL8A
Sequence domains:
Large ribosomal subunit protein eL8A Chains: L8, l8
Molecule details ›
Chains: L8, l8
Length: 255 amino acids
Theoretical weight: 28.04 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P17076 (Residues: 2-256; Coverage: 100%)
Gene names: MAK7, RPL4A, RPL8A, YHL033C
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Large ribosomal subunit protein uL6A Chains: L9, l9
Molecule details ›
Chains: L9, l9
Length: 191 amino acids
Theoretical weight: 21.61 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05738 (Residues: 1-191; Coverage: 100%)
Gene names: RPL8A, RPL9, RPL9A, YGL147C
Sequence domains: Ribosomal protein L6
Large ribosomal subunit protein uL16 Chains: M0, m0
Molecule details ›
Chains: M0, m0
Length: 220 amino acids
Theoretical weight: 25.28 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P41805 (Residues: 2-221; Coverage: 100%)
Gene names: GRC5, QSR1, RPL10, YLR075W
Sequence domains: Ribosomal protein L16p/L10e
Large ribosomal subunit protein uL5B Chains: M1, m1
Molecule details ›
Chains: M1, m1
Length: 173 amino acids
Theoretical weight: 19.65 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q3E757 (Residues: 2-174; Coverage: 99%)
Gene names: RP39B, RPL11B, RPL16B, YGR085C
Sequence domains:
Large ribosomal subunit protein eL13A Chains: M3, m3
Molecule details ›
Chains: M3, m3
Length: 198 amino acids
Theoretical weight: 22.47 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q12690 (Residues: 2-199; Coverage: 100%)
Gene names: RPL13A, YDL082W
Sequence domains: Ribosomal protein L13e
Large ribosomal subunit protein eL14A Chains: M4, m4
Molecule details ›
Chains: M4, m4
Length: 137 amino acids
Theoretical weight: 15.06 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P36105 (Residues: 2-138; Coverage: 99%)
Gene names: RPL14A, YKL006W, YKL153
Sequence domains:
Large ribosomal subunit protein eL15A Chains: M5, m5
Molecule details ›
Chains: M5, m5
Length: 203 amino acids
Theoretical weight: 24.35 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05748 (Residues: 2-204; Coverage: 100%)
Gene names: RPL10A, RPL13A, RPL15A, YL10A, YLR029C
Sequence domains: Ribosomal L15
Large ribosomal subunit protein uL13A Chains: M6, m6
Molecule details ›
Chains: M6, m6
Length: 198 amino acids
Theoretical weight: 22.12 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P26784 (Residues: 2-199; Coverage: 100%)
Gene names: RPL13, RPL16A, RPL21A, YIL133C
Sequence domains: Ribosomal protein L13
Large ribosomal subunit protein uL22A Chains: M7, m7
Molecule details ›
Chains: M7, m7
Length: 183 amino acids
Theoretical weight: 20.46 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05740 (Residues: 2-184; Coverage: 100%)
Gene names: RPL17, RPL17A, RPL20A, YKL180W
Sequence domains: Ribosomal protein L22p/L17e
Large ribosomal subunit protein eL18A Chains: M8, m8
Molecule details ›
Chains: M8, m8
Length: 185 amino acids
Theoretical weight: 20.48 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX49 (Residues: 2-186; Coverage: 100%)
Gene names: RP28A, RPL18A, YOL120C
Sequence domains: Ribosomal protein 60S L18 and 50S L18e
Large ribosomal subunit protein eL19A Chains: M9, m9
Molecule details ›
Chains: M9, m9
Length: 188 amino acids
Theoretical weight: 21.63 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX82 (Residues: 2-189; Coverage: 100%)
Gene names: RPL19A, RPL23A, YBR084BC, YBR084C-A, YL14A
Sequence domains: Ribosomal protein L19e
Large ribosomal subunit protein eL20A Chains: N0, n0
Molecule details ›
Chains: N0, n0
Length: 172 amino acids
Theoretical weight: 20.48 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX23 (Residues: 1-172; Coverage: 100%)
Gene names: RPL18A, RPL18A2, RPL20A, YM9408.04C, YMR242C
Sequence domains: Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A
Large ribosomal subunit protein eL21A Chains: N1, n1
Molecule details ›
Chains: N1, n1
Length: 159 amino acids
Theoretical weight: 18.15 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q02753 (Residues: 2-160; Coverage: 99%)
Gene names: RPL21A, URP1, YBR1401, YBR191W
Sequence domains: Ribosomal protein L21e
Large ribosomal subunit protein eL22A Chains: N2, n2
Molecule details ›
Chains: N2, n2
Length: 120 amino acids
Theoretical weight: 13.58 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05749 (Residues: 2-121; Coverage: 99%)
Gene names: L2168, RPL22A, YLR061W
Sequence domains: Ribosomal L22e protein family
Large ribosomal subunit protein uL14A Chains: N3, n3
Molecule details ›
Chains: N3, n3
Length: 136 amino acids
Theoretical weight: 14.36 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX41 (Residues: 2-137; Coverage: 99%)
Gene names: RPL17A, RPL17AA, RPL23A, YBL0713, YBL087C
Sequence domains: Ribosomal protein L14p/L23e
Large ribosomal subunit protein eL24A Chains: N4, n4
Molecule details ›
Chains: N4, n4
Length: 155 amino acids
Theoretical weight: 17.66 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P04449 (Residues: 1-155; Coverage: 100%)
Gene names: RP29, RPL24A, RPL30A, YGL031C
Sequence domains: Ribosomal protein L24e
Large ribosomal subunit protein uL23 Chains: N5, n5
Molecule details ›
Chains: N5, n5
Length: 141 amino acids
Theoretical weight: 15.66 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P04456 (Residues: 2-142; Coverage: 99%)
Gene names: RPL25, YOL127W
Sequence domains:
Large ribosomal subunit protein uL24A Chains: N6, n6
Molecule details ›
Chains: N6, n6
Length: 126 amino acids
Theoretical weight: 14.13 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05743 (Residues: 2-127; Coverage: 99%)
Gene names: L8300.4, RPL26, RPL26A, RPL33A, YLR344W
Sequence domains:
Large ribosomal subunit protein eL27A Chains: N7, n7
Molecule details ›
Chains: N7, n7
Length: 135 amino acids
Theoretical weight: 15.44 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0C2H6 (Residues: 2-136; Coverage: 99%)
Gene names: RPL27, RPL27A, YHR010W
Sequence domains: Ribosomal L27e protein family
Large ribosomal subunit protein uL15 Chains: N8, n8
Molecule details ›
Chains: N8, n8
Length: 148 amino acids
Theoretical weight: 16.63 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P02406 (Residues: 2-149; Coverage: 99%)
Gene names: CYH2, RPL28, YGL103W
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
Large ribosomal subunit protein eL29 Chains: N9, n9
Molecule details ›
Chains: N9, n9
Length: 58 amino acids
Theoretical weight: 6.56 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05747 (Residues: 2-59; Coverage: 98%)
Gene names: RPL29, YFR032BW, YFR032C-A, YL43
Sequence domains: Ribosomal L29e protein family
Large ribosomal subunit protein eL30 Chains: O0, o0
Molecule details ›
Chains: O0, o0
Length: 104 amino acids
Theoretical weight: 11.3 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P14120 (Residues: 2-105; Coverage: 99%)
Gene names: RPL30, RPL32, YGL030W
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Large ribosomal subunit protein eL31A Chains: O1, o1
Molecule details ›
Chains: O1, o1
Length: 112 amino acids
Theoretical weight: 12.85 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0C2H8 (Residues: 2-113; Coverage: 99%)
Gene names: D2478, RPL31A, RPL34, RPL34A, YDL075W
Sequence domains: Ribosomal protein L31e
Large ribosomal subunit protein eL32 Chains: O2, o2
Molecule details ›
Chains: O2, o2
Length: 129 amino acids
Theoretical weight: 14.68 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38061 (Residues: 2-130; Coverage: 99%)
Gene names: RPL32, YBL0838, YBL092W
Sequence domains: Ribosomal protein L32
Large ribosomal subunit protein eL33A Chains: O3, o3
Molecule details ›
Chains: O3, o3
Length: 106 amino acids
Theoretical weight: 12.05 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05744 (Residues: 2-107; Coverage: 99%)
Gene names: LPI4W, P2625, RPL33A, RPL37A, YPL143W
Sequence domains: Ribosomal protein L35Ae
Large ribosomal subunit protein eL34A Chains: O4, o4
Molecule details ›
Chains: O4, o4
Length: 119 amino acids
Theoretical weight: 13.41 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P87262 (Residues: 2-109; Coverage: 89%)
Gene names: RPL34A, YER056BC, YER056C-A
Sequence domains: Ribosomal protein L34e
Large ribosomal subunit protein uL29A Chains: O5, o5
Molecule details ›
Chains: O5, o5
Length: 119 amino acids
Theoretical weight: 13.81 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX84 (Residues: 2-120; Coverage: 99%)
Gene names: D1249, RPL35A, SOS1, YDL191W
Sequence domains: Ribosomal L29 protein
Large ribosomal subunit protein eL36A Chains: O6, o6
Molecule details ›
Chains: O6, o6
Length: 99 amino acids
Theoretical weight: 11.02 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05745 (Residues: 2-100; Coverage: 99%)
Gene names: RPL36A, RPL39A, YM9646.06, YMR194W
Sequence domains: Ribosomal protein L36e
Large ribosomal subunit protein eL37A Chains: O7, o7
Molecule details ›
Chains: O7, o7
Length: 87 amino acids
Theoretical weight: 9.75 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P49166 (Residues: 2-88; Coverage: 99%)
Gene names: L9470.6, RPL35A, RPL37A, YLR185W
Sequence domains: Ribosomal protein L37e
Large ribosomal subunit protein eL38 Chains: O8, o8
Molecule details ›
Chains: O8, o8
Length: 77 amino acids
Theoretical weight: 8.71 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P49167 (Residues: 2-78; Coverage: 99%)
Gene names: L8543.2, RPL38, YLR325C
Sequence domains: Ribosomal L38e protein family
Large ribosomal subunit protein eL39 Chains: O9, o9
Molecule details ›
Chains: O9, o9
Length: 50 amino acids
Theoretical weight: 6.23 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P04650 (Residues: 2-51; Coverage: 98%)
Gene names: J0360, RPL39, RPL46, SPB2, YJL189W
Sequence domains: Ribosomal L39 protein
Large ribosomal subunit protein eL40A Chains: Q0, q0
Molecule details ›
Chains: Q0, q0
Length: 52 amino acids
Theoretical weight: 6.03 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CH08 (Residues: 77-128; Coverage: 41%)
Gene names: RPL40A, UBI1, YIL148W
Sequence domains: Ribosomal L40e family
60S ribosomal protein L41-A Chains: Q1, q1
Molecule details ›
Chains: Q1, q1
Length: 25 amino acids
Theoretical weight: 3.35 KDa
Source organism: Saccharomyces cerevisiae S288C
Large ribosomal subunit protein eL42A Chains: Q2, q2
Molecule details ›
Chains: Q2, q2
Length: 105 amino acids
Theoretical weight: 12.12 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX27 (Residues: 2-106; Coverage: 99%)
Gene names: N1722, RPL41A, RPL42A, SCL41A, YNL162W
Sequence domains: Ribosomal protein L44
Large ribosomal subunit protein eL43A Chains: Q3, q3
Molecule details ›
Chains: Q3, q3
Length: 91 amino acids
Theoretical weight: 9.98 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX25 (Residues: 2-92; Coverage: 99%)
Gene names: RPL43A, YP9499.02, YPR043W
Sequence domains: Ribosomal L37ae protein family
Small ribosomal subunit protein eS30A Chain: e0
Molecule details ›
Chain: e0
Length: 62 amino acids
Theoretical weight: 7.01 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX33 (Residues: 2-61; Coverage: 95%)
Gene names: L8003.23, RPS30A, YLR287BC, YLR287C-A
Sequence domains: Ribosomal protein S30
Unknown Protein m2 Chain: m2
Molecule details ›
Chain: m2
Length: 160 amino acids
Theoretical weight: 13.63 KDa
Source organism: Saccharomyces cerevisiae S288C
Large ribosomal subunit protein uL10 Chain: p0
Molecule details ›
Chain: p0
Length: 311 amino acids
Theoretical weight: 33.62 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05317 (Residues: 2-312; Coverage: 100%)
Gene names: L10E, L8300.8, RPA0, RPL10E, RPLA0, RPP0, YLR340W
Sequence domains:
Unknown Protein p1 Chain: p1
Molecule details ›
Chain: p1
Length: 47 amino acids
Theoretical weight: 4.02 KDa
Source organism: Saccharomyces cerevisiae S288C
Unknown Protein p2 Chain: p2
Molecule details ›
Chain: p2
Length: 46 amino acids
Theoretical weight: 3.93 KDa
Source organism: Saccharomyces cerevisiae S288C
18S Ribosomal RNA Chains: 2, 6
Molecule details ›
Chains: 2, 6
Length: 1800 nucleotides
Theoretical weight: 579.76 KDa
Sequence domains: Eukaryotic small subunit ribosomal RNA
25S ribosomal RNA Chains: 1, 5
Molecule details ›
Chains: 1, 5
Length: 3396 nucleotides
Theoretical weight: 1097.49 KDa
Sequence domains: Eukaryotic large subunit ribosomal RNA
5S ribosomal RNA Chains: 3, 7
Molecule details ›
Chains: 3, 7
Length: 121 nucleotides
Theoretical weight: 38.95 KDa
Sequence domains: 5S ribosomal RNA
5.8S ribosomal RNA Chains: 4, 8
Molecule details ›
Chains: 4, 8
Length: 158 nucleotides
Theoretical weight: 50.68 KDa
Sequence domains: 5.8S ribosomal RNA

Ligands and Environments

4 bound ligands:
Ligand MG 1413 x MG
Ligand OHX 1131 x OHX
Ligand ZN 16 x ZN
Ligand 3J2 2 x 3J2
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: P21
Unit cell:
a: 435.39Å b: 286.22Å c: 303.33Å
α: 90° β: 98.97° γ: 90°
R-values:
R R work R free
0.208 0.207 0.258

Quick links

Citations

46 review citations

Non-AUG translation: a new start for protein synthesis in eukaryotes.
Kearse et al. (2017)
45 more

3 mentions without citation

Inhibition of the Eukaryotic 80S Ribosome as a Potential Anticancer Therapy: A Structural Perspective.
Pellegrino et al. (2021)
2 more