› 4uje

Electron Microscopy
6.9Å resolution

Regulation of the mammalian elongation cycle by 40S subunit rolling: a eukaryotic-specific ribosome rearrangement

Released:
DOI: 10.2210/pdb4uje/pdb
PDB entry 4uje coloured by chain, front view.
PDB entry 4uje coloured by chain, side view.
PDB entry 4uje coloured by chain, top view.
Source organism: Oryctolagus cuniculus
Primary publication:
Regulation of the mammalian elongation cycle by subunit rolling: a eukaryotic-specific ribosome rearrangement.
Budkevich TV, Giesebrecht J, Behrmann E, Loerke J, Ramrath DJ, Mielke T, Ismer J, Hildebrand PW, Tung CS, Nierhaus KH, Sanbonmatsu KY, Spahn CM
Cell 158 121-31 (2014)
PMID: 24995983
Related structures: EMD-2620

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 83-mer (preferred)
PDBe Complex ID:
PDB-CPX-165223 (preferred)
Entry contents:
76 distinct polypeptide molecules
7 distinct RNA molecules
Macromolecules (83 distinct):
40S RIBOSOMAL PROTEIN SA Chain: BA
Molecule details ›
Chain: BA
Length: 295 amino acids
Theoretical weight: 32.88 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S3A Chain: BB
Molecule details ›
Chain: BB
Length: 264 amino acids
Theoretical weight: 30 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S2 Chain: BC
Molecule details ›
Chain: BC
Length: 293 amino acids
Theoretical weight: 31.38 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S3 Chain: BD
Molecule details ›
Chain: BD
Length: 243 amino acids
Theoretical weight: 26.73 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S4, Y ISOFORM 1 Chain: BE
Molecule details ›
Chain: BE
Length: 263 amino acids
Theoretical weight: 29.51 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S5 Chain: BF
Molecule details ›
Chain: BF
Length: 204 amino acids
Theoretical weight: 22.91 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S6 Chain: BG
Molecule details ›
Chain: BG
Length: 249 amino acids
Theoretical weight: 28.75 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S7 Chain: BH
Molecule details ›
Chain: BH
Length: 194 amino acids
Theoretical weight: 22.17 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S8 Chain: BI
Molecule details ›
Chain: BI
Length: 208 amino acids
Theoretical weight: 24.26 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S9 Chain: BJ
Molecule details ›
Chain: BJ
Length: 194 amino acids
Theoretical weight: 22.64 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S10 Chain: BK
Molecule details ›
Chain: BK
Length: 165 amino acids
Theoretical weight: 18.93 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S11 Chain: BL
Molecule details ›
Chain: BL
Length: 158 amino acids
Theoretical weight: 18.47 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S12 Chain: BM
Molecule details ›
Chain: BM
Length: 132 amino acids
Theoretical weight: 14.54 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S13 Chain: BN
Molecule details ›
Chain: BN
Length: 151 amino acids
Theoretical weight: 17.26 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S14 Chain: BO
Molecule details ›
Chain: BO
Length: 151 amino acids
Theoretical weight: 16.3 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S15 Chain: BP
Molecule details ›
Chain: BP
Length: 145 amino acids
Theoretical weight: 17.08 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S16 Chain: BQ
Molecule details ›
Chain: BQ
Length: 146 amino acids
Theoretical weight: 16.48 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S17 Chain: BR
Molecule details ›
Chain: BR
Length: 135 amino acids
Theoretical weight: 15.58 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S18 Chain: BS
Molecule details ›
Chain: BS
Length: 152 amino acids
Theoretical weight: 17.76 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S19 Chain: BT
Molecule details ›
Chain: BT
Length: 145 amino acids
Theoretical weight: 16.09 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S20 Chain: BU
Molecule details ›
Chain: BU
Length: 119 amino acids
Theoretical weight: 13.4 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S21 Chain: BV
Molecule details ›
Chain: BV
Length: 83 amino acids
Theoretical weight: 9.12 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S15A Chain: BW
Molecule details ›
Chain: BW
Length: 130 amino acids
Theoretical weight: 14.87 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S23 Chain: BX
Molecule details ›
Chain: BX
Length: 143 amino acids
Theoretical weight: 15.84 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S24 Chain: BY
Molecule details ›
Chain: BY
Length: 133 amino acids
Theoretical weight: 15.46 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S25 Chain: BZ
Molecule details ›
Chain: BZ
Length: 125 amino acids
Theoretical weight: 13.78 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S26 Chain: Ba
Molecule details ›
Chain: Ba
Length: 115 amino acids
Theoretical weight: 13.05 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S27 Chain: Bb
Molecule details ›
Chain: Bb
Length: 84 amino acids
Theoretical weight: 9.48 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S28 Chain: Bc
Molecule details ›
Chain: Bc
Length: 69 amino acids
Theoretical weight: 7.86 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S29 Chain: Bd
Molecule details ›
Chain: Bd
Length: 56 amino acids
Theoretical weight: 6.69 KDa
Source organism: Oryctolagus cuniculus
40S RIBOSOMAL PROTEIN S30 Chain: Be
Molecule details ›
Chain: Be
Length: 59 amino acids
Theoretical weight: 6.67 KDa
Source organism: Oryctolagus cuniculus
UBIQUITIN-40S RIBOSOMAL PROTEIN S27A Chain: Bf
Molecule details ›
Chain: Bf
Length: 156 amino acids
Theoretical weight: 18 KDa
Source organism: Oryctolagus cuniculus
GUANINE NUCLEOTIDE-BINDING PROTEIN SUBUNIT BETA-2-LIKE 1 Chain: Bg
Molecule details ›
Chain: Bg
Length: 317 amino acids
Theoretical weight: 35.12 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L8 Chain: CA
Molecule details ›
Chain: CA
Length: 257 amino acids
Theoretical weight: 28.09 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L3 Chain: CB
Molecule details ›
Chain: CB
Length: 403 amino acids
Theoretical weight: 46.21 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L4 Chain: CC
Molecule details ›
Chain: CC
Length: 427 amino acids
Theoretical weight: 47.8 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L5 Chain: CD
Molecule details ›
Chain: CD
Length: 297 amino acids
Theoretical weight: 34.43 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L6 Chain: CE
Molecule details ›
Chain: CE
Length: 288 amino acids
Theoretical weight: 32.81 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L7 Chain: CF
Molecule details ›
Chain: CF
Length: 248 amino acids
Theoretical weight: 29.29 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L7A Chain: CG
Molecule details ›
Chain: CG
Length: 266 amino acids
Theoretical weight: 30.06 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L9 Chain: CH
Molecule details ›
Chain: CH
Length: 192 amino acids
Theoretical weight: 21.9 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L10 Chain: CI
Molecule details ›
Chain: CI
Length: 214 amino acids
Theoretical weight: 24.66 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L11 Chain: CJ
Molecule details ›
Chain: CJ
Length: 178 amino acids
Theoretical weight: 20.29 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L13 Chain: CL
Molecule details ›
Chain: CL
Length: 211 amino acids
Theoretical weight: 24.32 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L14 Chain: CM
Molecule details ›
Chain: CM
Length: 215 amino acids
Theoretical weight: 23.49 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L15 Chain: CN
Molecule details ›
Chain: CN
Length: 204 amino acids
Theoretical weight: 24.21 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L13A Chain: CO
Molecule details ›
Chain: CO
Length: 203 amino acids
Theoretical weight: 23.63 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L17 Chain: CP
Molecule details ›
Chain: CP
Length: 184 amino acids
Theoretical weight: 21.44 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L18 Chain: CQ
Molecule details ›
Chain: CQ
Length: 188 amino acids
Theoretical weight: 21.69 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L19 Chain: CR
Molecule details ›
Chain: CR
Length: 196 amino acids
Theoretical weight: 23.54 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L18A Chain: CS
Molecule details ›
Chain: CS
Length: 176 amino acids
Theoretical weight: 20.81 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L21 Chain: CT
Molecule details ›
Chain: CT
Length: 160 amino acids
Theoretical weight: 18.61 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L22 Chain: CU
Molecule details ›
Chain: CU
Length: 128 amino acids
Theoretical weight: 14.81 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L23 Chain: CV
Molecule details ›
Chain: CV
Length: 140 amino acids
Theoretical weight: 14.89 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L24 Chain: CW
Molecule details ›
Chain: CW
Length: 157 amino acids
Theoretical weight: 17.83 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L23A Chain: CX
Molecule details ›
Chain: CX
Length: 156 amino acids
Theoretical weight: 17.74 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L26 Chain: CY
Molecule details ›
Chain: CY
Length: 145 amino acids
Theoretical weight: 17.3 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L27 Chain: CZ
Molecule details ›
Chain: CZ
Length: 136 amino acids
Theoretical weight: 15.84 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L27A Chain: Ca
Molecule details ›
Chain: Ca
Length: 148 amino acids
Theoretical weight: 16.6 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L29 Chain: Cb
Molecule details ›
Chain: Cb
Length: 159 amino acids
Theoretical weight: 17.8 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L30 Chain: Cc
Molecule details ›
Chain: Cc
Length: 115 amino acids
Theoretical weight: 12.81 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L31 Chain: Cd
Molecule details ›
Chain: Cd
Length: 125 amino acids
Theoretical weight: 14.49 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L32 Chain: Ce
Molecule details ›
Chain: Ce
Length: 135 amino acids
Theoretical weight: 15.9 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L35A Chain: Cf
Molecule details ›
Chain: Cf
Length: 110 amino acids
Theoretical weight: 12.56 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L34 Chain: Cg
Molecule details ›
Chain: Cg
Length: 117 amino acids
Theoretical weight: 13.33 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L35 Chain: Ch
Molecule details ›
Chain: Ch
Length: 123 amino acids
Theoretical weight: 14.59 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L36 Chain: Ci
Molecule details ›
Chain: Ci
Length: 105 amino acids
Theoretical weight: 12.29 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L37 Chain: Cj
Molecule details ›
Chain: Cj
Length: 97 amino acids
Theoretical weight: 11.11 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L38 Chain: Ck
Molecule details ›
Chain: Ck
Length: 70 amino acids
Theoretical weight: 8.24 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L39 Chain: Cl
Molecule details ›
Chain: Cl
Length: 51 amino acids
Theoretical weight: 6.43 KDa
Source organism: Oryctolagus cuniculus
UBIQUITIN-60S RIBOSOMAL PROTEIN L40 Chain: Cm
Molecule details ›
Chain: Cm
Length: 128 amino acids
Theoretical weight: 14.76 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L41 Chain: Cn
Molecule details ›
Chain: Cn
Length: 25 amino acids
Theoretical weight: 3.47 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L36A Chain: Co
Molecule details ›
Chain: Co
Length: 106 amino acids
Theoretical weight: 12.48 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L37A Chain: Cp
Molecule details ›
Chain: Cp
Length: 92 amino acids
Theoretical weight: 10.3 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L28 Chain: Ct
Molecule details ›
Chain: Ct
Length: 137 amino acids
Theoretical weight: 15.78 KDa
Source organism: Oryctolagus cuniculus
60S RIBOSOMAL PROTEIN L10A Chain: Cu
Molecule details ›
Chain: Cu
Length: 210 amino acids
Theoretical weight: 23.17 KDa
Source organism: Oryctolagus cuniculus
TRNA-LYS Chain: AV
Molecule details ›
Chain: AV
Length: 76 nucleotides
Theoretical weight: 24.49 KDa
Sequence domains: tRNA
TRNA-PHE Chain: AW
Molecule details ›
Chain: AW
Length: 76 nucleotides
Theoretical weight: 24.6 KDa
Sequence domains: tRNA
Messenger RNA Chain: AX
Molecule details ›
Chain: AX
Length: 28 nucleotides
Theoretical weight: 8.53 KDa
18S Ribosomal RNA Chain: B1
Molecule details ›
Chain: B1
Length: 1869 nucleotides
Theoretical weight: 602.78 KDa
Sequence domains: Eukaryotic small subunit ribosomal RNA
28S ribosomal RNA Chain: A2
Molecule details ›
Chain: A2
Length: 5025 nucleotides
Theoretical weight: 1625.92 KDa
Sequence domains: Eukaryotic large subunit ribosomal RNA
5.8S ribosomal RNA Chain: A3
Molecule details ›
Chain: A3
Length: 194 nucleotides
Theoretical weight: 62.62 KDa
Sequence domains: 5.8S ribosomal RNA
5S ribosomal RNA Chain: A4
Molecule details ›
Chain: A4
Length: 121 nucleotides
Theoretical weight: 39 KDa
Sequence domains: 5S ribosomal RNA

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MIA 1 x MIA

Experiments and Validation Details

Entry percentile scores
Resolution: 6.9Å
Relevant EMDB volumes: EMD-2620

Quick links

Citations

15 review citations

Organization and Regulation of Mitochondrial Protein Synthesis.
Ott et al. (2016)
14 more

8 mentions without citation

Ribosomal 18S rRNA base pairs with mRNA during eukaryotic translation initiation.
Martin et al. (2016)
7 more