6ORE

Release complex 70S

  • Classification: RIBOSOME
  • Organism(s): Escherichia coli
  • Mutation(s): No 

  • Deposited: 2019-04-30 Released: 2019-06-19 
  • Deposition Author(s): Fu, Z.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Swedish Research Council

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The structural basis for release-factor activation during translation termination revealed by time-resolved cryogenic electron microscopy.

Fu, Z.Indrisiunaite, G.Kaledhonkar, S.Shah, B.Sun, M.Chen, B.Grassucci, R.A.Ehrenberg, M.Frank, J.

(2019) Nat Commun 10: 2579-2579

  • DOI: 10.1038/s41467-019-10608-z
  • Primary Citation of Related Structures:  
    6ORE, 6ORL, 6OSK, 6OSQ, 6OST, 6OT3, 6OUO

  • PubMed Abstract: 
  • When the ribosome encounters a stop codon, it recruits a release factor (RF) to hydrolyze the ester bond between the peptide chain and tRNA. RFs have structural motifs that recognize stop codons in the decoding center and a GGQ motif for induction of hydrolysis in the peptidyl transfer center 70 Å away ...

    When the ribosome encounters a stop codon, it recruits a release factor (RF) to hydrolyze the ester bond between the peptide chain and tRNA. RFs have structural motifs that recognize stop codons in the decoding center and a GGQ motif for induction of hydrolysis in the peptidyl transfer center 70 Å away. Surprisingly, free RF2 is compact, with only 20 Å between its codon-reading and GGQ motifs. Cryo-EM showed that ribosome-bound RFs have extended structures, suggesting that RFs are compact when entering the ribosome and then extend their structures upon stop codon recognition. Here we use time-resolved cryo-EM to visualize transient compact forms of RF1 and RF2 at 3.5 and 4 Å resolution, respectively, in the codon-recognizing ribosome complex on the native pathway. About 25% of complexes have RFs in the compact state at 24 ms reaction time, and within 60 ms virtually all ribosome-bound RFs are transformed to their extended forms.


    Organizational Affiliation

    Department of Biological Sciences, Columbia University, New York, NY, 10027, USA. jf2192@cumc.columbia.edu.



Macromolecules

  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
FME-PHE-PHEF [auth A]3Escherichia coliMutation(s): 0 
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L2G [auth B]271Escherichia coliMutation(s): 0 
UniProt
Find proteins for P60422 (Escherichia coli (strain K12))
Explore P60422 
Go to UniProtKB:  P60422
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L3H [auth C]209Escherichia coliMutation(s): 0 
UniProt
Find proteins for P60438 (Escherichia coli (strain K12))
Explore P60438 
Go to UniProtKB:  P60438
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L4I [auth D]201Escherichia coliMutation(s): 0 
UniProt
Find proteins for P60723 (Escherichia coli (strain K12))
Explore P60723 
Go to UniProtKB:  P60723
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L5J [auth E]177Escherichia coliMutation(s): 0 
UniProt
Find proteins for P62399 (Escherichia coli (strain K12))
Explore P62399 
Go to UniProtKB:  P62399
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L6K [auth F]175Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0AG55 (Escherichia coli (strain K12))
Explore P0AG55 
Go to UniProtKB:  P0AG55
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L9L [auth G]149Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7R1 (Escherichia coli (strain K12))
Explore P0A7R1 
Go to UniProtKB:  P0A7R1
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L13M [auth J]142Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0AA10 (Escherichia coli (strain K12))
Explore P0AA10 
Go to UniProtKB:  P0AA10
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L14N [auth K]123Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0ADY3 (Escherichia coli (strain K12))
Explore P0ADY3 
Go to UniProtKB:  P0ADY3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L15O [auth L]144Escherichia coliMutation(s): 0 
UniProt
Find proteins for P02413 (Escherichia coli (strain K12))
Explore P02413 
Go to UniProtKB:  P02413
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L16P [auth M]136Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0ADY7 (Escherichia coli (strain K12))
Explore P0ADY7 
Go to UniProtKB:  P0ADY7
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L17Q [auth N]119Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0AG44 (Escherichia coli (strain K12))
Explore P0AG44 
Go to UniProtKB:  P0AG44
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L18R [auth O]116Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0C018 (Escherichia coli (strain K12))
Explore P0C018 
Go to UniProtKB:  P0C018
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L19S [auth P]114Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7K6 (Escherichia coli (strain K12))
Explore P0A7K6 
Go to UniProtKB:  P0A7K6
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L20T [auth Q]117Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7L3 (Escherichia coli (strain K12))
Explore P0A7L3 
Go to UniProtKB:  P0A7L3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L21U [auth R]103Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0AG48 (Escherichia coli (strain K12))
Explore P0AG48 
Go to UniProtKB:  P0AG48
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L22V [auth S]110Escherichia coliMutation(s): 0 
UniProt
Find proteins for P61175 (Escherichia coli (strain K12))
Explore P61175 
Go to UniProtKB:  P61175
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L23W [auth T]94Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0ADZ0 (Escherichia coli (strain K12))
Explore P0ADZ0 
Go to UniProtKB:  P0ADZ0
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L24X [auth U]103Escherichia coliMutation(s): 0 
UniProt
Find proteins for P60624 (Escherichia coli (strain K12))
Explore P60624 
Go to UniProtKB:  P60624
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L25Y [auth V]94Escherichia coliMutation(s): 0 
UniProt
Find proteins for P68919 (Escherichia coli (strain K12))
Explore P68919 
Go to UniProtKB:  P68919
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L27Z [auth W]76Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7L8 (Escherichia coli (strain K12))
Explore P0A7L8 
Go to UniProtKB:  P0A7L8
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L28AA [auth X]77Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7M2 (Escherichia coli (strain K12))
Explore P0A7M2 
Go to UniProtKB:  P0A7M2
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L29BA [auth Y]62Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7M6 (Escherichia coli (strain K12))
Explore P0A7M6 
Go to UniProtKB:  P0A7M6
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 29
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L30CA [auth Z]58Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0AG51 (Escherichia coli (strain K12))
Explore P0AG51 
Go to UniProtKB:  P0AG51
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L31DA [auth a]66Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7M9 (Escherichia coli (strain K12))
Explore P0A7M9 
Go to UniProtKB:  P0A7M9
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L32EA [auth b]56Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7N4 (Escherichia coli (strain K12))
Explore P0A7N4 
Go to UniProtKB:  P0A7N4
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L33FA [auth c]52Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7N9 (Escherichia coli (strain K12))
Explore P0A7N9 
Go to UniProtKB:  P0A7N9
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 33
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L34GA [auth d]46Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7P5 (Escherichia coli (strain K12))
Explore P0A7P5 
Go to UniProtKB:  P0A7P5
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 34
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L35HA [auth e]64Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7Q1 (Escherichia coli (strain K12))
Explore P0A7Q1 
Go to UniProtKB:  P0A7Q1
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 35
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L36IA [auth f]38Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7Q6 (Escherichia coli (strain K12))
Explore P0A7Q6 
Go to UniProtKB:  P0A7Q6
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 36
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S2JA [auth g]225Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7V0 (Escherichia coli (strain K12))
Explore P0A7V0 
Go to UniProtKB:  P0A7V0
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 37
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S3KA [auth h]208Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7V3 (Escherichia coli (strain K12))
Explore P0A7V3 
Go to UniProtKB:  P0A7V3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 38
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S4LA [auth i]205Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7V8 (Escherichia coli (strain K12))
Explore P0A7V8 
Go to UniProtKB:  P0A7V8
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 39
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S5MA [auth j]156Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7W1 (Escherichia coli (strain K12))
Explore P0A7W1 
Go to UniProtKB:  P0A7W1
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 40
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S6NA [auth k]104Escherichia coliMutation(s): 0 
UniProt
Find proteins for P02358 (Escherichia coli (strain K12))
Explore P02358 
Go to UniProtKB:  P02358
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 41
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S7OA [auth l]151Escherichia coliMutation(s): 0 
UniProt
Find proteins for P02359 (Escherichia coli (strain K12))
Explore P02359 
Go to UniProtKB:  P02359
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 42
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S8PA [auth m]129Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7W7 (Escherichia coli (strain K12))
Explore P0A7W7 
Go to UniProtKB:  P0A7W7
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 43
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S9QA [auth n]127Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7X3 (Escherichia coli (strain K12))
Explore P0A7X3 
Go to UniProtKB:  P0A7X3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 44
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S10RA [auth o]99Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7R5 (Escherichia coli (strain K12))
Explore P0A7R5 
Go to UniProtKB:  P0A7R5
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 45
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S11SA [auth p]117Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7R9 (Escherichia coli (strain K12))
Explore P0A7R9 
Go to UniProtKB:  P0A7R9
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 46
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S12TA [auth q]123Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7S3 (Escherichia coli (strain K12))
Explore P0A7S3 
Go to UniProtKB:  P0A7S3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 47
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S13UA [auth r]116Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7S9 (Escherichia coli (strain K12))
Explore P0A7S9 
Go to UniProtKB:  P0A7S9
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 48
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S14VA [auth s]100Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0AG59 (Escherichia coli (strain K12))
Explore P0AG59 
Go to UniProtKB:  P0AG59
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 49
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S15WA [auth t]88Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0ADZ4 (Escherichia coli (strain K12))
Explore P0ADZ4 
Go to UniProtKB:  P0ADZ4
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 50
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S16XA [auth u]82Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7T3 (Escherichia coli (strain K12))
Explore P0A7T3 
Go to UniProtKB:  P0A7T3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 51
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S17YA [auth v]80Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0AG63 (Escherichia coli (strain K12))
Explore P0AG63 
Go to UniProtKB:  P0AG63
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 52
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S18ZA [auth w]66Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7T7 (Escherichia coli (strain K12))
Explore P0A7T7 
Go to UniProtKB:  P0A7T7
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 53
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S19AB [auth x]83Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7U3 (Escherichia coli (strain K12))
Explore P0A7U3 
Go to UniProtKB:  P0A7U3
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 54
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S20BB [auth y]86Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7U7 (Escherichia coli (strain K12))
Explore P0A7U7 
Go to UniProtKB:  P0A7U7
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 55
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S21CB [auth z]70Escherichia coliMutation(s): 0 
UniProt
Find proteins for P68679 (Escherichia coli (strain K12))
Explore P68679 
Go to UniProtKB:  P68679
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsLengthOrganismImage
23S ribosomal RNAA [auth 1]2903Escherichia coli
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsLengthOrganismImage
16S ribosomal RNAB [auth 2]1534Escherichia coli
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsLengthOrganismImage
5S ribosomal RNAC [auth 3]120Escherichia coli
Protein Feature View
Expand
  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 4
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(P*UP*UP*CP*UP*UP*CP*UP*AP*A)-3')D [auth 4]9Escherichia coli
    Protein Feature View
    Expand
    • Reference Sequence
    Find similar nucleic acids by:  (by identity cutoff)  |  Structure
    Entity ID: 5
    MoleculeChainsLengthOrganismImage
    P-tRNAE [auth 5]76Escherichia coli
    Protein Feature View
    Expand
    • Reference Sequence
    Small Molecules
    Ligands 2 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    ZN
    Query on ZN

    Download Ideal Coordinates CCD File 
    SR [auth a], WR [auth f]ZINC ION
    Zn
    PTFCDOFLOPIGGS-UHFFFAOYSA-N
     Ligand Interaction
    MG
    Query on MG

    Download Ideal Coordinates CCD File 
    AC [auth 1] , AD [auth 1] , AE [auth 1] , AF [auth 1] , AG [auth 1] , AH [auth 1] , AI [auth 1] , AJ [auth 1] , 
    AC [auth 1],  AD [auth 1],  AE [auth 1],  AF [auth 1],  AG [auth 1],  AH [auth 1],  AI [auth 1],  AJ [auth 1],  AK [auth 1],  AL [auth 1],  AM [auth 1],  AN [auth 2],  AO [auth 2],  AP [auth 2],  AQ [auth 2],  AR [auth 2],  BC [auth 1],  BD [auth 1],  BE [auth 1],  BF [auth 1],  BG [auth 1],  BH [auth 1],  BI [auth 1],  BJ [auth 1],  BK [auth 1],  BL [auth 1],  BM [auth 1],  BN [auth 2],  BO [auth 2],  BP [auth 2],  BQ [auth 2],  BR [auth 2],  CC [auth 1],  CD [auth 1],  CE [auth 1],  CF [auth 1],  CG [auth 1],  CH [auth 1],  CI [auth 1],  CJ [auth 1],  CK [auth 1],  CL [auth 1],  CM [auth 1],  CN [auth 2],  CO [auth 2],  CP [auth 2],  CQ [auth 2],  CR [auth 2],  DB [auth 1],  DC [auth 1],  DD [auth 1],  DE [auth 1],  DF [auth 1],  DG [auth 1],  DH [auth 1],  DI [auth 1],  DJ [auth 1],  DK [auth 1],  DL [auth 1],  DM [auth 1],  DN [auth 2],  DO [auth 2],  DP [auth 2],  DQ [auth 2],  DR [auth 3],  EB [auth 1],  EC [auth 1],  ED [auth 1],  EE [auth 1],  EF [auth 1],  EG [auth 1],  EH [auth 1],  EI [auth 1],  EJ [auth 1],  EK [auth 1],  EL [auth 1],  EM [auth 1],  EN [auth 2],  EO [auth 2],  EP [auth 2],  EQ [auth 2],  ER [auth 3],  FB [auth 1],  FC [auth 1],  FD [auth 1],  FE [auth 1],  FF [auth 1],  FG [auth 1],  FH [auth 1],  FI [auth 1],  FJ [auth 1],  FK [auth 1],  FL [auth 1],  FM [auth 1],  FN [auth 2],  FO [auth 2],  FP [auth 2],  FQ [auth 2],  FR [auth 3],  GB [auth 1],  GC [auth 1],  GD [auth 1],  GE [auth 1],  GF [auth 1],  GG [auth 1],  GH [auth 1],  GI [auth 1],  GJ [auth 1],  GK [auth 1],  GL [auth 1],  GM [auth 1],  GN [auth 2],  GO [auth 2],  GP [auth 2],  GQ [auth 2],  GR [auth 3],  HB [auth 1],  HC [auth 1],  HD [auth 1],  HE [auth 1],  HF [auth 1],  HG [auth 1],  HH [auth 1],  HI [auth 1],  HJ [auth 1],  HK [auth 1],  HL [auth 1],  HM [auth 2],  HN [auth 2],  HO [auth 2],  HP [auth 2],  HQ [auth 2],  HR [auth 3],  IB [auth 1],  IC [auth 1],  ID [auth 1],  IE [auth 1],  IF [auth 1],  IG [auth 1],  IH [auth 1],  II [auth 1],  IJ [auth 1],  IK [auth 1],  IL [auth 1],  IM [auth 2],  IN [auth 2],  IO [auth 2],  IP [auth 2],  IQ [auth 2],  IR [auth 3],  JB [auth 1],  JC [auth 1],  JD [auth 1],  JE [auth 1],  JF [auth 1],  JG [auth 1],  JH [auth 1],  JI [auth 1],  JJ [auth 1],  JK [auth 1],  JL [auth 1],  JM [auth 2],  JN [auth 2],  JO [auth 2],  JP [auth 2],  JQ [auth 2],  JR [auth 3],  KB [auth 1],  KC [auth 1],  KD [auth 1],  KE [auth 1],  KF [auth 1],  KG [auth 1],  KH [auth 1],  KI [auth 1],  KJ [auth 1],  KK [auth 1],  KL [auth 1],  KM [auth 2],  KN [auth 2],  KO [auth 2],  KP [auth 2],  KQ [auth 2],  KR [auth 3],  LB [auth 1],  LC [auth 1],  LD [auth 1],  LE [auth 1],  LF [auth 1],  LG [auth 1],  LH [auth 1],  LI [auth 1],  LJ [auth 1],  LK [auth 1],  LL [auth 1],  LM [auth 2],  LN [auth 2],  LO [auth 2],  LP [auth 2],  LQ [auth 2],  LR [auth 5],  MB [auth 1],  MC [auth 1],  MD [auth 1],  ME [auth 1],  MF [auth 1],  MG [auth 1],  MH [auth 1],  MI [auth 1],  MJ [auth 1],  MK [auth 1],  ML [auth 1],  MM [auth 2],  MN [auth 2],  MO [auth 2],  MP [auth 2],  MQ [auth 2],  MR [auth 5],  NB [auth 1],  NC [auth 1],  ND [auth 1],  NE [auth 1],  NF [auth 1],  NG [auth 1],  NH [auth 1],  NI [auth 1],  NJ [auth 1],  NK [auth 1],  NL [auth 1],  NM [auth 2],  NN [auth 2],  NO [auth 2],  NP [auth 2],  NQ [auth 2],  NR [auth 5],  OB [auth 1],  OC [auth 1],  OD [auth 1],  OE [auth 1],  OF [auth 1],  OG [auth 1],  OH [auth 1],  OI [auth 1],  OJ [auth 1],  OK [auth 1],  OL [auth 1],  OM [auth 2],  ON [auth 2],  OO [auth 2],  OP [auth 2],  OQ [auth 2],  OR [auth 5],  PB [auth 1],  PC [auth 1],  PD [auth 1],  PE [auth 1],  PF [auth 1],  PG [auth 1],  PH [auth 1],  PI [auth 1],  PJ [auth 1],  PK [auth 1],  PL [auth 1],  PM [auth 2],  PN [auth 2],  PO [auth 2],  PP [auth 2],  PQ [auth 2],  PR [auth B],  QB [auth 1],  QC [auth 1],  QD [auth 1],  QE [auth 1],  QF [auth 1],  QG [auth 1],  QH [auth 1],  QI [auth 1],  QJ [auth 1],  QK [auth 1],  QL [auth 1],  QM [auth 2],  QN [auth 2],  QO [auth 2],  QP [auth 2],  QQ [auth 2],  QR [auth C],  RB [auth 1],  RC [auth 1],  RD [auth 1],  RE [auth 1],  RF [auth 1],  RG [auth 1],  RH [auth 1],  RI [auth 1],  RJ [auth 1],  RK [auth 1],  RL [auth 1],  RM [auth 2],  RN [auth 2],  RO [auth 2],  RP [auth 2],  RQ [auth 2],  RR [auth Q],  SB [auth 1],  SC [auth 1],  SD [auth 1],  SE [auth 1],  SF [auth 1],  SG [auth 1],  SH [auth 1],  SI [auth 1],  SJ [auth 1],  SK [auth 1],  SL [auth 1],  SM [auth 2],  SN [auth 2],  SO [auth 2],  SP [auth 2],  SQ [auth 2],  TB [auth 1],  TC [auth 1],  TD [auth 1],  TE [auth 1],  TF [auth 1],  TG [auth 1],  TH [auth 1],  TI [auth 1],  TJ [auth 1],  TK [auth 1],  TL [auth 1],  TM [auth 2],  TN [auth 2],  TO [auth 2],  TP [auth 2],  TQ [auth 2],  TR [auth b],  UB [auth 1],  UC [auth 1],  UD [auth 1],  UE [auth 1],  UF [auth 1],  UG [auth 1],  UH [auth 1],  UI [auth 1],  UJ [auth 1],  UK [auth 1],  UL [auth 1],  UM [auth 2],  UN [auth 2],  UO [auth 2],  UP [auth 2],  UQ [auth 2],  UR [auth b],  VB [auth 1],  VC [auth 1],  VD [auth 1],  VE [auth 1],  VF [auth 1],  VG [auth 1],  VH [auth 1],  VI [auth 1],  VJ [auth 1],  VK [auth 1],  VL [auth 1],  VM [auth 2],  VN [auth 2],  VO [auth 2],  VP [auth 2],  VQ [auth 2],  VR [auth f],  WB [auth 1],  WC [auth 1],  WD [auth 1],  WE [auth 1],  WF [auth 1],  WG [auth 1],  WH [auth 1],  WI [auth 1],  WJ [auth 1],  WK [auth 1],  WL [auth 1],  WM [auth 2],  WN [auth 2],  WO [auth 2],  WP [auth 2],  WQ [auth 2],  XB [auth 1],  XC [auth 1],  XD [auth 1],  XE [auth 1],  XF [auth 1],  XG [auth 1],  XH [auth 1],  XI [auth 1],  XJ [auth 1],  XK [auth 1],  XL [auth 1],  XM [auth 2],  XN [auth 2],  XO [auth 2],  XP [auth 2],  XQ [auth 2],  XR [auth i],  YB [auth 1],  YC [auth 1],  YD [auth 1],  YE [auth 1],  YF [auth 1],  YG [auth 1],  YH [auth 1],  YI [auth 1],  YJ [auth 1],  YK [auth 1],  YL [auth 1],  YM [auth 2],  YN [auth 2],  YO [auth 2],  YP [auth 2],  YQ [auth 2],  YR [auth r],  ZB [auth 1],  ZC [auth 1],  ZD [auth 1],  ZE [auth 1],  ZF [auth 1],  ZG [auth 1],  ZH [auth 1],  ZI [auth 1],  ZJ [auth 1],  ZK [auth 1],  ZL [auth 1],  ZM [auth 2],  ZN [auth 2],  ZO [auth 2],  ZP [auth 2],  ZQ [auth 2]
    MAGNESIUM ION
    Mg
    JLVVSXFLKOJNIY-UHFFFAOYSA-N
     Ligand Interaction
    Modified Residues  2 Unique
    IDChainsTypeFormula2D DiagramParent
    FME
    Query on FME
    F [auth A]L-PEPTIDE LINKINGC6 H11 N O3 SMET
    0TD
    Query on 0TD
    TA [auth q]L-PEPTIDE LINKINGC5 H9 N O4 SASP
    Experimental Data & Validation

    Experimental Data

    • Method: ELECTRON MICROSCOPY
    • Resolution: 2.90 Å
    • Aggregation State: PARTICLE 
    • Reconstruction Method: SINGLE PARTICLE 

    Structure Validation

    View Full Validation Report




    Entry History & Funding Information

    Deposition Data

    • Deposited Date: 2019-04-30 
    • Released Date: 2019-06-19 
    • Deposition Author(s): Fu, Z.

    Funding OrganizationLocationGrant Number
    National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM55440
    National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM29169
    Swedish Research CouncilSweden--

    Revision History  (Full details and data files)

    • Version 1.0: 2019-06-19
      Type: Initial release
    • Version 1.1: 2019-06-26
      Changes: Data collection, Database references
    • Version 1.2: 2019-12-18
      Changes: Author supporting evidence, Other