6MTE

Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Structures of translationally inactive mammalian ribosomes.

Brown, A.Baird, M.R.Yip, M.C.Murray, J.Shao, S.

(2018) Elife 7

  • DOI: https://doi.org/10.7554/eLife.40486
  • Primary Citation of Related Structures:  
    6MTB, 6MTC, 6MTD, 6MTE

  • PubMed Abstract: 

    The cellular levels and activities of ribosomes directly regulate gene expression during numerous physiological processes. The mechanisms that globally repress translation are incompletely understood. Here, we use electron cryomicroscopy to analyze inactive ribosomes isolated from mammalian reticulocytes, the penultimate stage of red blood cell differentiation. We identify two types of ribosomes that are translationally repressed by protein interactions. The first comprises ribosomes sequestered with elongation factor 2 (eEF2) by SERPINE mRNA binding protein 1 (SERBP1) occupying the ribosomal mRNA entrance channel. The second type are translationally repressed by a novel ribosome-binding protein, interferon-related developmental regulator 2 (IFRD2), which spans the P and E sites and inserts a C-terminal helix into the mRNA exit channel to preclude translation. IFRD2 binds ribosomes with a tRNA occupying a noncanonical binding site, the 'Z site', on the ribosome. These structures provide functional insights into how ribosomal interactions may suppress translation to regulate gene expression.


  • Organizational Affiliation

    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, United States.


Macromolecules

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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
uL2D [auth A]248Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TT27 (Oryctolagus cuniculus)
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
uL3E [auth B]394Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TL06 (Oryctolagus cuniculus)
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
uL4F [auth C]362Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
uL18G [auth D]293Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for P19949 (Oryctolagus cuniculus)
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
eL6H [auth E]291Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SKF7 (Oryctolagus cuniculus)
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
uL30I [auth F]225Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SV32 (Oryctolagus cuniculus)
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
eL8J [auth G]319Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
uL6K [auth H]190Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SWI6 (Oryctolagus cuniculus)
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
uL16L [auth I]214Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for B7NZQ2 (Oryctolagus cuniculus)
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
uL5M [auth J]170Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TUB8 (Oryctolagus cuniculus)
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
eL13N [auth L]210Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
eL14O [auth M]138Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SZ12 (Oryctolagus cuniculus)
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
eL15P [auth N]203Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1T0C1 (Oryctolagus cuniculus)
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
uL13Q [auth O]199Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
uL22R [auth P]153Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SCJ6 (Oryctolagus cuniculus)
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
eL18S [auth Q]187Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
eL19T [auth R]180Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
eL20U [auth S]176Oryctolagus cuniculusMutation(s): 0 
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Find proteins for A0A287APR1 (Sus scrofa)
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
eL21V [auth T]159Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SHQ2 (Oryctolagus cuniculus)
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
eL22W [auth U]99Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
uL14X [auth V]131Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1T6D1 (Oryctolagus cuniculus)
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
eL24Y [auth W]157Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SE28 (Oryctolagus cuniculus)
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
uL23Z [auth X]118Oryctolagus cuniculusMutation(s): 0 
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Find proteins for Q24JY1 (Bos taurus)
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
uL24AA [auth Y]134Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SQH0 (Oryctolagus cuniculus)
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
eL27BA [auth Z]135Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TXF6 (Oryctolagus cuniculus)
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
uL15CA [auth a]147Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SNY0 (Oryctolagus cuniculus)
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
eL29DA [auth b]245Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
eL30EA [auth c]98Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TDL2 (Oryctolagus cuniculus)
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
eL31FA [auth d]107Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SHG0 (Oryctolagus cuniculus)
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
eL32GA [auth e]128Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TUN8 (Oryctolagus cuniculus)
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
eL33HA [auth f]109Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SF08 (Oryctolagus cuniculus)
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
eL34IA [auth g]114Oryctolagus cuniculusMutation(s): 0 
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Find proteins for P49207 (Homo sapiens)
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GTEx:  ENSG00000109475 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
uL29JA [auth h]122Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SIT5 (Oryctolagus cuniculus)
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
eL36KA [auth i]102Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TTQ5 (Oryctolagus cuniculus)
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
eL37LA [auth j]86Oryctolagus cuniculusMutation(s): 0 
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Find proteins for U3KPD5 (Oryctolagus cuniculus)
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
eL38MA [auth k]69Oryctolagus cuniculusMutation(s): 0 
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Find proteins for Q32PB9 (Bos taurus)
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
eL39NA [auth l]50Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TTN1 (Oryctolagus cuniculus)
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
eL40OA [auth m]52Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
eL41PA [auth n]25Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
eL42QA [auth o]103Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1T040 (Oryctolagus cuniculus)
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
eL43RA [auth p]91Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SY53 (Oryctolagus cuniculus)
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
eL28SA [auth r]124Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1U7L1 (Oryctolagus cuniculus)
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
uL10TA [auth s]196Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
uL11UA [auth t]153Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SMR7 (Oryctolagus cuniculus)
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
eEF2VA [auth v]848Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
SERBP1WA [auth w]55Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
uS2YA [auth AA]217Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
eS1ZA [auth BB]213Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SS70 (Oryctolagus cuniculus)
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
uS5AB [auth CC]221Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for O18789 (Bos taurus)
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
uS3BB [auth DD]228Oryctolagus cuniculusMutation(s): 0 
EC: 4.2.99.18
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Find proteins for E2RH47 (Canis lupus familiaris)
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UniProt GroupE2RH47
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
eS4CB [auth EE]262Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for Q76N24 (Chlorocebus aethiops)
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
uS7DB [auth FF]204Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TFM5 (Oryctolagus cuniculus)
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
eS6EB [auth GG]237Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TM55 (Oryctolagus cuniculus)
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
eS7FB [auth HH]194Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SVB0 (Oryctolagus cuniculus)
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
eS8GB [auth II]206Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for Q5E958 (Bos taurus)
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
uS4HB [auth JJ]185Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for B7NZS8 (Oryctolagus cuniculus)
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
eS10IB [auth KK]96Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TPV3 (Oryctolagus cuniculus)
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
uS17JB [auth LL]158Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TRM4 (Oryctolagus cuniculus)
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
eS12KB [auth MM]117Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SFR8 (Oryctolagus cuniculus)
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
uS15LB [auth NN]149Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SP51 (Oryctolagus cuniculus)
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
uS11MB [auth OO]136Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for P13471 (Rattus norvegicus)
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
uS19NB [auth PP]125Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1U0Q2 (Oryctolagus cuniculus)
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
uS9OB [auth QQ]142Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for Q3T0X6 (Bos taurus)
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
eS17PB [auth RR]132Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TU13 (Oryctolagus cuniculus)
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
uS13QB [auth SS]144Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TPG3 (Oryctolagus cuniculus)
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
eS19RB [auth TT]141Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
uS10SB [auth UU]100Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for Q3ZBH8 (Bos taurus)
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UniProt GroupQ3ZBH8
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
eS21TB [auth VV]83Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for Q32PB8 (Bos taurus)
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UniProt GroupQ32PB8
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
uS8UB [auth WW]129Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TG89 (Oryctolagus cuniculus)
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
uS12VB [auth XX]141Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for Q3T199 (Bos taurus)
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UniProt GroupQ3T199
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
eS24WB [auth YY]124Oryctolagus cuniculusMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P62847 (Homo sapiens)
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PHAROS:  P62847
GTEx:  ENSG00000138326 
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
eS25XB [auth ZZ]75Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TDB3 (Oryctolagus cuniculus)
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UniProt GroupG1TDB3
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
eS26YB [auth aa]101Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for Q56JV1 (Bos taurus)
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
eS27ZB [auth bb]83Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for Q2KHT7 (Bos taurus)
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UniProt GroupQ2KHT7
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Entity ID: 79
MoleculeChains Sequence LengthOrganismDetailsImage
eS28AC [auth cc]62Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TIB4 (Oryctolagus cuniculus)
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UniProt GroupG1TIB4
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Entity ID: 80
MoleculeChains Sequence LengthOrganismDetailsImage
uS14BC [auth dd]55Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1U7M4 (Oryctolagus cuniculus)
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UniProt GroupG1U7M4
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Entity ID: 81
MoleculeChains Sequence LengthOrganismDetailsImage
eS30CC [auth ee]55Oryctolagus cuniculusMutation(s): 0 
UniProt
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