3j7p

Electron Microscopy
3.5Å resolution

Structure of the 80S mammalian ribosome bound to eEF2

Released:
Source organism: Sus scrofa
Related structures: EMD-2646

Function and Biology Details

Reaction catalysed:
The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero 82-mer (preferred)
Entry contents:
78 distinct polypeptide molecules
4 distinct RNA molecules
Macromolecules (82 distinct):
Ribosomal_L2_C domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 257 amino acids
Theoretical weight: 28.09 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z567 (Residues: 1-257; Coverage: 100%)
Gene name: RPL8
Sequence domains:
Ribosomal protein uL3 Chain: B
Molecule details ›
Chain: B
Length: 394 amino acids
Theoretical weight: 44.76 KDa
Source organism: Sus scrofa
Ribosomal protein uL4 Chain: C
Molecule details ›
Chain: C
Length: 367 amino acids
Theoretical weight: 41.64 KDa
Source organism: Sus scrofa
Ribosomal_L18_c domain-containing protein Chain: D
Molecule details ›
Chain: D
Length: 297 amino acids
Theoretical weight: 34.42 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F1S530 (Residues: 1-63, 64-252; Coverage: 100%)
Gene name: RPL5
Sequence domains:
Ribosomal protein eL6 Chain: E
Molecule details ›
Chain: E
Length: 236 amino acids
Theoretical weight: 27.05 KDa
Source organism: Sus scrofa
Ribosomal protein uL30 Chain: F
Molecule details ›
Chain: F
Length: 225 amino acids
Theoretical weight: 26.59 KDa
Source organism: Sus scrofa
Ribosomal protein eL8 Chain: G
Molecule details ›
Chain: G
Length: 266 amino acids
Theoretical weight: 30.17 KDa
Source organism: Sus scrofa
60S ribosomal protein L9 Chain: H
Molecule details ›
Chain: H
Length: 192 amino acids
Theoretical weight: 21.9 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: I3LP78 (Residues: 1-192; Coverage: 100%)
Gene name: RPL9
Sequence domains: Ribosomal protein L6
Ribosomal protein uL16 Chain: I
Molecule details ›
Chain: I
Length: 213 amino acids
Theoretical weight: 24.47 KDa
Source organism: Sus scrofa
60S ribosomal protein L11 Chain: J
Molecule details ›
Chain: J
Length: 178 amino acids
Theoretical weight: 20.25 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q29205 (Residues: 1-178; Coverage: 100%)
Gene name: RPL11
Sequence domains:
60S ribosomal protein L12 Chain: K
Molecule details ›
Chain: K
Length: 163 amino acids
Theoretical weight: 17.69 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q6QAS5 (Residues: 27-189; Coverage: 85%)
Sequence domains:
60S ribosomal protein L13 Chain: L
Molecule details ›
Chain: L
Length: 211 amino acids
Theoretical weight: 24.37 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: I3LSD3 (Residues: 1-211; Coverage: 100%)
Gene name: RPL13
Sequence domains: Ribosomal protein L13e
60S ribosomal protein L14 Chain: M
Molecule details ›
Chain: M
Length: 213 amino acids
Theoretical weight: 23.38 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A1XQU3 (Residues: 1-213; Coverage: 100%)
Gene name: RPL14
Sequence domains: Ribosomal protein L14
Ribosomal protein L15 Chain: N
Molecule details ›
Chain: N
Length: 204 amino acids
Theoretical weight: 24.21 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: I3LK33 (Residues: 1-79, 80-82, 83-104, 105-114, 115-130; Coverage: 92%)
Sequence domains: Ribosomal L15
Ribosomal protein uL13 Chain: O
Molecule details ›
Chain: O
Length: 204 amino acids
Theoretical weight: 23.77 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F1RI01 (Residues: 1-45, 46-93, 94-98, 99-147, 148-156; Coverage: 100%)
Ribosomal protein uL22 Chain: P
Molecule details ›
Chain: P
Length: 153 amino acids
Theoretical weight: 17.76 KDa
Source organism: Sus scrofa
60S ribosomal protein L18 Chain: Q
Molecule details ›
Chain: Q
Length: 188 amino acids
Theoretical weight: 21.59 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q95342 (Residues: 8-195; Coverage: 96%)
Gene name: RPL18
Sequence domains: Ribosomal protein 60S L18 and 50S L18e
Ribosomal protein L19 Chain: R
Molecule details ›
Chain: R
Length: 196 amino acids
Theoretical weight: 23.57 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z546 (Residues: 1-194; Coverage: 100%)
Gene name: RPL19
Sequence domains: Ribosomal protein L19e
60S ribosomal protein L18a Chain: S
Molecule details ›
Chain: S
Length: 224 amino acids
Theoretical weight: 26.1 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F1S935 (Residues: 1-147; Coverage: 100%)
Gene name: RPL18A
Sequence domains: Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A
60S ribosomal protein L21 Chain: T
Molecule details ›
Chain: T
Length: 160 amino acids
Theoretical weight: 18.61 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P49666 (Residues: 1-160; Coverage: 100%)
Gene name: RPL21
Sequence domains: Ribosomal protein L21e
60S ribosomal protein L22 Chain: U
Molecule details ›
Chain: U
Length: 128 amino acids
Theoretical weight: 14.78 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P67985 (Residues: 1-128; Coverage: 100%)
Gene name: RPL22
Sequence domains: Ribosomal L22e protein family
60S ribosomal protein L23 Chain: V
Molecule details ›
Chain: V
Length: 140 amino acids
Theoretical weight: 14.89 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P62831 (Residues: 1-140; Coverage: 100%)
Gene name: RPL23
Sequence domains: Ribosomal protein L14p/L23e
Ribosomal protein eL24 Chain: W
Molecule details ›
Chain: W
Length: 157 amino acids
Theoretical weight: 17.83 KDa
Source organism: Sus scrofa
Ribosomal protein uL23 Chain: X
Molecule details ›
Chain: X
Length: 156 amino acids
Theoretical weight: 17.74 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z522 (Residues: 2-28, 29-111, 112-117; Coverage: 99%)
Sequence domains: Ribosomal protein L23
KOW domain-containing protein Chain: Y
Molecule details ›
Chain: Y
Length: 145 amino acids
Theoretical weight: 17.3 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: I3L7Y1 (Residues: 1-145; Coverage: 100%)
Gene name: RPL26
Sequence domains:
60S ribosomal protein L27 Chain: Z
Molecule details ›
Chain: Z
Length: 136 amino acids
Theoretical weight: 15.84 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A1XQU5 (Residues: 1-136; Coverage: 100%)
Gene name: RPL27
Sequence domains:
Ribosomal_L18e/L15P domain-containing protein Chain: a
Molecule details ›
Chain: a
Length: 148 amino acids
Theoretical weight: 16.63 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F1RGC0 (Residues: 1-148; Coverage: 100%)
Gene name: RPL27A
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
60S ribosomal protein L29 Chain: b
Molecule details ›
Chain: b
Length: 160 amino acids
Theoretical weight: 17.55 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q95281 (Residues: 1-160; Coverage: 100%)
Gene name: RPL29
Sequence domains: Ribosomal L29e protein family
Ribosomal_L7Ae domain-containing protein Chain: c
Molecule details ›
Chain: c
Length: 115 amino acids
Theoretical weight: 12.81 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z554 (Residues: 1-115; Coverage: 100%)
Gene name: RPL30
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
60S ribosomal protein L31 Chain: d
Molecule details ›
Chain: d
Length: 125 amino acids
Theoretical weight: 14.49 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P62901 (Residues: 1-125; Coverage: 100%)
Gene name: RPL31
Sequence domains: Ribosomal protein L31e
60S ribosomal protein L32 Chain: e
Molecule details ›
Chain: e
Length: 135 amino acids
Theoretical weight: 15.9 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q6QAT0 (Residues: 1-135; Coverage: 100%)
Gene name: RPL32
Sequence domains: Ribosomal protein L32
Ribosomal protein eL33 Chain: f
Molecule details ›
Chain: f
Length: 110 amino acids
Theoretical weight: 12.56 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z5Q8 (Residues: 9-115; Coverage: 93%)
Gene name: RPL35A
Sequence domains: Ribosomal protein L35Ae
60S ribosomal protein L34 Chain: g
Molecule details ›
Chain: g
Length: 117 amino acids
Theoretical weight: 13.33 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q29223 (Residues: 1-117; Coverage: 100%)
Gene name: RPL34
Sequence domains: Ribosomal protein L34e
60S ribosomal protein L35 Chain: h
Molecule details ›
Chain: h
Length: 123 amino acids
Theoretical weight: 14.59 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q29361 (Residues: 1-123; Coverage: 100%)
Gene name: RPL35
Sequence domains: Ribosomal L29 protein
Ribosomal protein eL36 Chain: i
Molecule details ›
Chain: i
Length: 105 amino acids
Theoretical weight: 12.29 KDa
Source organism: Sus scrofa
Ribosomal protein eL37 Chain: j
Molecule details ›
Chain: j
Length: 86 amino acids
Theoretical weight: 10.1 KDa
Source organism: Sus scrofa
60S ribosomal protein L38 Chain: k
Molecule details ›
Chain: k
Length: 70 amino acids
Theoretical weight: 8.24 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z568 (Residues: 1-70; Coverage: 100%)
Gene name: RPL38
Sequence domains: Ribosomal L38e protein family
Ribosomal protein eL39 Chain: l
Molecule details ›
Chain: l
Length: 51 amino acids
Theoretical weight: 6.43 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: K7GP63 (Residues: 1-51; Coverage: 100%)
Gene names: LOC100525679, LOC100623540, RPL39
Sequence domains: Ribosomal L39 protein
Ubiquitin-60S ribosomal protein L40 Chain: m
Molecule details ›
Chain: m
Length: 128 amino acids
Theoretical weight: 14.76 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P63053 (Residues: 1-128; Coverage: 100%)
Gene names: UBA52, UBCEP2
Sequence domains:
Ribosomal protein eL41 Chain: n
Molecule details ›
Chain: n
Length: 25 amino acids
Theoretical weight: 3.47 KDa
Source organism: Sus scrofa
60S ribosomal protein L36a Chain: o
Molecule details ›
Chain: o
Length: 106 amino acids
Theoretical weight: 12.48 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P83884 (Residues: 1-106; Coverage: 100%)
Gene names: RPL36A, RPL44
Sequence domains: Ribosomal protein L44
Ribosomal protein eL43 Chain: p
Molecule details ›
Chain: p
Length: 91 amino acids
Theoretical weight: 10.17 KDa
Source organism: Sus scrofa
Ribosomal protein uL10 Chain: q
Molecule details ›
Chain: q
Length: 202 amino acids
Theoretical weight: 22.22 KDa
Source organism: Sus scrofa
Ribosomal protein eL28 Chain: r
Molecule details ›
Chain: r
Length: 125 amino acids
Theoretical weight: 14.3 KDa
Source organism: Sus scrofa
Eukaryotic elongation factor 2 Chain: 4
Molecule details ›
Chain: 4
Length: 856 amino acids
Theoretical weight: 95.23 KDa
Source organism: Sus scrofa
40S ribosomal protein SA Chain: SA
Molecule details ›
Chain: SA
Length: 295 amino acids
Theoretical weight: 32.96 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q4GWZ2 (Residues: 1-295; Coverage: 100%)
Gene names: LAMR1, RPSA
Sequence domains:
40S ribosomal protein S3a Chain: SB
Molecule details ›
Chain: SB
Length: 264 amino acids
Theoretical weight: 29.93 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: B6V8C8 (Residues: 1-264; Coverage: 100%)
Gene name: RPS3A
Sequence domains: Ribosomal S3Ae family
Ribosomal protein uS5 Chain: SC
Molecule details ›
Chain: SC
Length: 218 amino acids
Theoretical weight: 24.09 KDa
Source organism: Sus scrofa
40S ribosomal protein S3 Chain: SD
Molecule details ›
Chain: SD
Length: 243 amino acids
Theoretical weight: 26.73 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q0Z8U2 (Residues: 1-243; Coverage: 100%)
Gene name: RPS3
Sequence domains:
40S ribosomal protein S4 Chain: SE
Molecule details ›
Chain: SE
Length: 263 amino acids
Theoretical weight: 29.65 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F1RQ91 (Residues: 1-263; Coverage: 100%)
Gene name: RPS4X
Sequence domains:
Ribosomal_S7 domain-containing protein Chain: SF
Molecule details ›
Chain: SF
Length: 204 amino acids
Theoretical weight: 22.91 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z5E6 (Residues: 1-204; Coverage: 100%)
Gene name: RPS5
Sequence domains: Ribosomal protein S7p/S5e
Ribosomal protein eS6 Chain: SG
Molecule details ›
Chain: SG
Length: 249 amino acids
Theoretical weight: 28.75 KDa
Source organism: Sus scrofa
40S ribosomal protein S7 Chain: SH
Molecule details ›
Chain: SH
Length: 194 amino acids
Theoretical weight: 22.17 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: I3L5B2 (Residues: 1-74, 75-183; Coverage: 100%)
Gene name: RPS7
Sequence domains: Ribosomal protein S7e
40S ribosomal protein S8 Chain: SI
Molecule details ›
Chain: SI
Length: 208 amino acids
Theoretical weight: 24.26 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z5F5 (Residues: 1-208; Coverage: 100%)
Gene name: RPS8
Sequence domains: Ribosomal protein S8e
Ribosomal protein uS4 Chain: SJ
Molecule details ›
Chain: SJ
Length: 194 amino acids
Theoretical weight: 22.64 KDa
Source organism: Sus scrofa
S10_plectin domain-containing protein Chain: SK
Molecule details ›
Chain: SK
Length: 165 amino acids
Theoretical weight: 18.97 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F1RZ28 (Residues: 1-165; Coverage: 100%)
Gene name: RPS10-NUDT3
Sequence domains: Plectin/S10 domain
Ribosomal_S17_N domain-containing protein Chain: SL
Molecule details ›
Chain: SL
Length: 158 amino acids
Theoretical weight: 18.47 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z4Y8 (Residues: 1-158; Coverage: 100%)
Gene name: RPS11
Sequence domains:
Ribosomal protein eS12 Chain: SM
Molecule details ›
Chain: SM
Length: 124 amino acids
Theoretical weight: 13.78 KDa
Source organism: Sus scrofa
Ribosomal protein uS15 Chain: SN
Molecule details ›
Chain: SN
Length: 151 amino acids
Theoretical weight: 17.26 KDa
Source organism: Sus scrofa
Ribosomal protein uS11 Chain: SO
Molecule details ›
Chain: SO
Length: 151 amino acids
Theoretical weight: 16.3 KDa
Source organism: Sus scrofa
40S ribosomal protein S15 Chain: SP
Molecule details ›
Chain: SP
Length: 145 amino acids
Theoretical weight: 17.08 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P62844 (Residues: 1-145; Coverage: 100%)
Gene names: RIG, RPS15
Sequence domains: Ribosomal protein S19
40S ribosomal protein S16 Chain: SQ
Molecule details ›
Chain: SQ
Length: 146 amino acids
Theoretical weight: 16.48 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q29201 (Residues: 1-146; Coverage: 100%)
Gene name: RPS16
Sequence domains: Ribosomal protein S9/S16
40S ribosomal protein S17 Chain: SR
Molecule details ›
Chain: SR
Length: 135 amino acids
Theoretical weight: 15.55 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q6QAP7 (Residues: 1-135; Coverage: 100%)
Gene name: RPS17
Sequence domains: Ribosomal S17
40S ribosomal protein S18 Chain: SS
Molecule details ›
Chain: SS
Length: 152 amino acids
Theoretical weight: 17.76 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P62272 (Residues: 1-152; Coverage: 100%)
Gene name: RPS18
Sequence domains: Ribosomal protein S13/S18
40S ribosomal protein S19 Chain: ST
Molecule details ›
Chain: ST
Length: 145 amino acids
Theoretical weight: 16.09 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F1RGG1 (Residues: 1-145; Coverage: 100%)
Gene name: RPS19
Sequence domains: Ribosomal protein S19e
40S ribosomal protein S20 Chain: SU
Molecule details ›
Chain: SU
Length: 119 amino acids
Theoretical weight: 13.36 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A1XQU9 (Residues: 1-119; Coverage: 100%)
Gene name: RPS20
Sequence domains: Ribosomal protein S10p/S20e
40S ribosomal protein S21 Chain: SV
Molecule details ›
Chain: SV
Length: 83 amino acids
Theoretical weight: 9.12 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P63221 (Residues: 1-83; Coverage: 100%)
Gene name: RPS21
Sequence domains: Ribosomal protein S21e
Ribosomal protein uS8 Chain: SW
Molecule details ›
Chain: SW
Length: 130 amino acids
Theoretical weight: 14.87 KDa
Source organism: Sus scrofa
40S ribosomal protein S23 Chain: SX
Molecule details ›
Chain: SX
Length: 143 amino acids
Theoretical weight: 15.85 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q6SA96 (Residues: 1-143; Coverage: 100%)
Gene name: RPS23
Sequence domains: Ribosomal protein S12/S23
Ribosomal protein eS24 Chain: SY
Molecule details ›
Chain: SY
Length: 132 amino acids
Theoretical weight: 15.37 KDa
Source organism: Sus scrofa
Ribosomal protein es25 Chain: SZ
Molecule details ›
Chain: SZ
Length: 125 amino acids
Theoretical weight: 13.78 KDa
Source organism: Sus scrofa
40S ribosomal protein S26 Chain: Sa
Molecule details ›
Chain: Sa
Length: 115 amino acids
Theoretical weight: 13.05 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P49171 (Residues: 1-115; Coverage: 100%)
Gene name: RPS26
Sequence domains: Ribosomal protein S26e
Ribosomal protein eS27 Chain: Sb
Molecule details ›
Chain: Sb
Length: 84 amino acids
Theoretical weight: 9.48 KDa
Source organism: Sus scrofa
40S ribosomal protein S28 Chain: Sc
Molecule details ›
Chain: Sc
Length: 69 amino acids
Theoretical weight: 7.86 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q6QAT1 (Residues: 1-69; Coverage: 100%)
Gene name: RPS28
Sequence domains: Ribosomal protein S28e
40S ribosomal protein S29 Chain: Sd
Molecule details ›
Chain: Sd
Length: 56 amino acids
Theoretical weight: 6.61 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: Q6QAP6 (Residues: 1-56; Coverage: 100%)
Gene name: RPS29
Sequence domains: Ribosomal protein S14p/S29e
Ribosomal protein eS30 Chain: Se
Molecule details ›
Chain: Se
Length: 133 amino acids
Theoretical weight: 14.41 KDa
Source organism: Sus scrofa
Ubiquitin-like domain-containing protein Chain: Sf
Molecule details ›
Chain: Sf
Length: 156 amino acids
Theoretical weight: 18 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: F2Z5U0 (Residues: 2-41, 42-51, 52-130; Coverage: 99%)
Sequence domains: Ribosomal protein S27a
Receptor of activated protein C kinase 1 Chain: Sg
Molecule details ›
Chain: Sg
Length: 317 amino acids
Theoretical weight: 35.12 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: P63246 (Residues: 1-317; Coverage: 100%)
Gene names: GNB2L1, RACK1
Sequence domains: WD domain, G-beta repeat
28S ribosomal RNA Chain: 5
Molecule details ›
Chain: 5
Length: 3664 nucleotides
Theoretical weight: 1187.23 KDa
Sequence domains: Eukaryotic large subunit ribosomal RNA
5S ribosomal RNA Chain: 7
Molecule details ›
Chain: 7
Length: 120 nucleotides
Theoretical weight: 38.69 KDa
Sequence domains: 5S ribosomal RNA
5.8S ribosomal RNA Chain: 8
Molecule details ›
Chain: 8
Length: 156 nucleotides
Theoretical weight: 50.14 KDa
Sequence domains: 5.8S ribosomal RNA
18S Ribosomal RNA Chain: S2
Molecule details ›
Chain: S2
Length: 1742 nucleotides
Theoretical weight: 561.96 KDa
Sequence domains: Eukaryotic small subunit ribosomal RNA

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.5Å
Relevant EMDB volumes: EMD-2646