4V8Z

Cryo-EM reconstruction of the 80S-eIF5B-Met-itRNAMet Eukaryotic Translation Initiation Complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.6 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 3.0 of the entry. See complete history

Literature

Molecular architecture of a eukaryotic translational initiation complex.

Fernandez, I.S.Bai, X.C.Hussain, T.Kelley, A.C.Lorsch, J.R.Ramakrishnan, V.Scheres, S.H.W.

(2013) Science 342: 1240585-1240585

  • DOI: 10.1126/science.1240585
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The last step in eukaryotic translational initiation involves the joining of the large and small subunits of the ribosome, with initiator transfer RNA (Met-tRNA(i)(Met)) positioned over the start codon of messenger RNA in the P site. This step is cat ...

    The last step in eukaryotic translational initiation involves the joining of the large and small subunits of the ribosome, with initiator transfer RNA (Met-tRNA(i)(Met)) positioned over the start codon of messenger RNA in the P site. This step is catalyzed by initiation factor eIF5B. We used recent advances in cryo-electron microscopy (cryo-EM) to determine a structure of the eIF5B initiation complex to 6.6 angstrom resolution from <3% of the population, comprising just 5143 particles. The structure reveals conformational changes in eIF5B, initiator tRNA, and the ribosome that provide insights into the role of eIF5B in translational initiation. The relatively high resolution obtained from such a small fraction of a heterogeneous sample suggests a general approach for characterizing the structure of other dynamic or transient biological complexes.


    Organizational Affiliation

    MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, CB2 0QH, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S26-A
A0
119Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS26A (RPS26)
Find proteins for P39938 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P39938
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S27-A
A1
82Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS27A
Find proteins for P35997 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  P35997
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S28-A
A2
67Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS28A (RPS33, RPS33A)
Find proteins for Q3E7X9 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q3E7X9
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S29-A
A3
56Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS29A (RPS36A, YS29A)
Find proteins for P41057 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P41057
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S30-A
A4
63Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS30A
Find proteins for P0CX33 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX33
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
UBIQUITIN-40S RIBOSOMAL PROTEIN S31
A5
152Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS31 (RPS37, UBI3)
Find proteins for P05759 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05759
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
GUANINE NUCLEOTIDE-BINDING PROTEIN SUBUNIT BETA-LIKE PROTEIN
A6
319Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: ASC1 (CPC2)
Find proteins for P38011 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P38011
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
SUPPRESSOR PROTEIN STM1
A7
273Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: STM1 (MPT4, STO1)
Find proteins for P39015 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P39015
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S0-A
AA
252Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS0A (NAB1, NAB1A, YST1)
Find proteins for P32905 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P32905
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S1-A
AB
255Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS1A (PLC1, RPS10A)
Find proteins for P33442 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P33442
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S2
AC
254Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS2 (RPS4, SUP38, SUP44)
Find proteins for P25443 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPS2
Go to UniProtKB:  P25443
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S3
AD
240Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS3 (SUF14)
Find proteins for P05750 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S4-A
AE
261Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS4A (RPS7B)
Find proteins for P0CX35 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX35
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S5
AF
225Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS5 (RPS2)
Find proteins for P26783 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPS5
Go to UniProtKB:  P26783
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S6-A
AG
236Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS6A (RPS101, RPS10B)
Find proteins for P0CX37 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX37
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S7-A
AH
190Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS7A (RPS30)
Find proteins for P26786 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P26786
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S8-A
AI
200Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS8A (RPS14A)
Find proteins for P0CX39 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX39
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S9-A
AJ
197Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS9A (RPS13A, YS11A)
Find proteins for O13516 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  O13516
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S10-A
AK
105Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS10A
Find proteins for Q08745 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q08745
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S11-A
AL
156Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS11A (RPS18A)
Find proteins for P0CX47 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX47
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S12
AM
143Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS12
Find proteins for P48589 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPS12
Go to UniProtKB:  P48589
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S13
AN
151Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS13 (RPS13C)
Find proteins for P05756 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  P05756
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S14-A
AO
137Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS14A (CRY1, RPL59)
Find proteins for P06367 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P06367
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S15
AP
142Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS15 (RPS21)
Find proteins for Q01855 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPS15
Go to UniProtKB:  Q01855
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S16-A
AQ
143Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS16A (RP61R)
Find proteins for P0CX51 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX51
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S17-A
AR
136Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS17A (RP51A)
Find proteins for P02407 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P02407
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S18-A
AS
146Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS18A
Find proteins for P0CX55 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX55
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S19-A
AT
144Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS19A (RP55A, RPS16AA)
Find proteins for P07280 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P07280
Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S20
AU
121Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS20 (URP2)
Find proteins for P38701 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  P38701
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S21-A
AV
87Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS21A (RPS25, RPS25A, RPS26A)
Find proteins for P0C0V8 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0C0V8
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S22-A
AW
130Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS22A (RPS24, RPS24A)
Find proteins for P0C0W1 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0C0W1
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S23-A
AX
145Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS23A (RPS28A)
Find proteins for P0CX29 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX29
Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S24-A
AY
135Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS24A (RPS24EA)
Find proteins for P0CX31 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX31
Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
40S RIBOSOMAL PROTEIN S25-A
AZ
108Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPS25A (RPS31A)
Find proteins for Q3E792 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q3E792
Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L2-B
BA
253Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL2B (RPL5A)
Find proteins for P0CX46 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX46
Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L3
BB
386Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL3 (MAK8, TCM1)
Find proteins for P14126 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL3
Go to UniProtKB:  P14126
Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L4-A
BC
361Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL4A (RPL2, RPL2A)
Find proteins for P10664 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P10664
Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L5
BD
296Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL5 (RPL1, RPL1A)
Find proteins for P26321 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL5
Go to UniProtKB:  P26321
Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L6-A
BE
175Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL6A (RPL17A, YL16A)
Find proteins for Q02326 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  Q02326
Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L7-A
BF
243Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL7A (RPL6A, RPL8A, YL8A)
Find proteins for P05737 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL7A
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Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L8-A
BG
255Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL8A (MAK7, RPL4A)
Find proteins for P17076 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P17076
Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L9-A
BH
191Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL9A (RPL8A, RPL9)
Find proteins for P05738 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05738
Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L10
BI
220Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL10 (GRC5, QSR1)
Find proteins for P41805 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL10
Go to UniProtKB:  P41805
Entity ID: 44
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L11-A
BJ
173Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL11A (RP39A, RPL16A)
Find proteins for P0C0W9 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0C0W9
Entity ID: 45
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L11-A
BK
174N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 46
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L13-A
BL
198Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL13A
Find proteins for Q12690 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL13A
Go to UniProtKB:  Q12690
Entity ID: 47
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L14-B
BM
137Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL14B
Find proteins for P38754 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P38754
Entity ID: 48
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L15-A
BN
203Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL15A (RPL10A, RPL13A, YL10A)
Find proteins for P05748 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05748
Entity ID: 49
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L16-A
BO
198Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL16A (RPL13, RPL21A)
Find proteins for P26784 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P26784
Entity ID: 50
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L17-A
BP
183Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL17A (RPL17, RPL20A)
Find proteins for P05740 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05740
Entity ID: 51
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L18-A
BQ
185Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL18A (RP28A)
Find proteins for P0CX49 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL18A
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Entity ID: 52
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L19-B
BR
188Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL19B (RPL23B, YL14B)
Find proteins for P0CX83 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 53
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L20-B
BS
172Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL20B (RPL18A1, RPL18B)
Find proteins for P0CX24 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX24
Entity ID: 54
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L21-A
BT
159Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL21A (URP1)
Find proteins for Q02753 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 55
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L22-A
BU
120Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL22A
Find proteins for P05749 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05749
Entity ID: 56
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L23-A
BV
136Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL23A (RPL17A, RPL17AA)
Find proteins for P0CX41 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 57
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L24-A
BW
155Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL24A (RP29, RPL30A)
Find proteins for P04449 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P04449
Entity ID: 58
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L25
BX
141Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL25
Find proteins for P04456 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 59
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L26-A
BY
126Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL26A (RPL26, RPL33A)
Find proteins for P05743 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05743
Entity ID: 60
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L27-A
BZ
135Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL27A (RPL27)
Find proteins for P0C2H6 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 61
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L28
Ba
148Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL28 (CYH2)
Find proteins for P02406 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 62
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L29
Bb
58Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL29 (YL43)
Find proteins for P05747 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL29
Go to UniProtKB:  P05747
Entity ID: 63
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L30
Bc
104Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL30 (RPL32)
Find proteins for P14120 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL30
Go to UniProtKB:  P14120
Entity ID: 64
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L31-A
Bd
112Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL31A (RPL34, RPL34A)
Find proteins for P0C2H8 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0C2H8
Entity ID: 65
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L32
Be
129Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL32
Find proteins for P38061 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL32
Go to UniProtKB:  P38061
Entity ID: 66
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L33-A
Bf
106Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL33A (RPL37A)
Find proteins for P05744 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05744
Entity ID: 67
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L34-A
Bg
120Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL34A
Find proteins for P87262 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P87262
Entity ID: 68
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L35-B
Bh
119Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL35B (SOS2)
Find proteins for P0CX85 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX85
Entity ID: 69
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L36-A
Bi
99Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL36A (RPL39A)
Find proteins for P05745 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL36A
Go to UniProtKB:  P05745
Entity ID: 70
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L37-A
Bj
87Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL37A (RPL35A)
Find proteins for P49166 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL37A
Go to UniProtKB:  P49166
Entity ID: 71
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L38
Bk
77Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL38
Find proteins for P49167 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL38
Go to UniProtKB:  P49167
Entity ID: 72
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L39
Bl
50Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL39 (RPL46, SPB2)
Find proteins for P04650 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: RPL39
Go to UniProtKB:  P04650
Entity ID: 73
MoleculeChainsSequence LengthOrganismDetails
UBIQUITIN-60S RIBOSOMAL PROTEIN L40
Bm
128Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL40A (UBI1)
Find proteins for P0CH08 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CH08
Entity ID: 74
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L41-B
Bn
25Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL41B (RPL47B, YL41B)
Find proteins for P0CX87 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX87
Entity ID: 75
MoleculeChainsSequence LengthOrganismDetails
60S RIBOSOMAL PROTEIN L42-A
Bo
105Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPL42A (RPL41A, SCL41A)
Find proteins for P0CX27 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P0CX27
Entity ID: 76
MoleculeChainsSequence LengthOrganismDetails
60S ACIDIC RIBOSOMAL PROTEIN P0
Bq
312Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RPP0 (L10E, RPA0, RPL10E, RPLA0)
Find proteins for P05317 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P05317
Entity ID: 77
MoleculeChainsSequence LengthOrganismDetails
60S ACIDIC RIBOSOMAL PROTEIN P1
Br
47N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 78
MoleculeChainsSequence LengthOrganismDetails
60S ACIDIC RIBOSOMAL PROTEIN P2
Bs
46N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 83
MoleculeChainsSequence LengthOrganismDetails
EUKARYOTIC TRANSLATION INITIATION FACTOR 5B, PROBABLE TRANSLATION INITIATION FACTOR IF-2
CV
586Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H)Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
This entity is chimeric
Mutation(s): 0 
Gene Names: infB, FUN12
EC: 3.6.5.3
Find proteins for O26359 (Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H))
Go to UniProtKB:  O26359
Find proteins for P39730 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P39730
Entity ID: 79
MoleculeChainsLengthOrganism
18S RIBOSOMAL RNAB21800Saccharomyces cerevisiae
Entity ID: 80
MoleculeChainsLengthOrganism
25S RIBOSOMAL RNAB53396Saccharomyces cerevisiae
Entity ID: 81
MoleculeChainsLengthOrganism
5S RIBOSOMAL RNAB7121Saccharomyces cerevisiae
Entity ID: 82
MoleculeChainsLengthOrganism
5.8S RIBOSOMAL RNAB8158Saccharomyces cerevisiae
Entity ID: 84
MoleculeChainsLengthOrganism
EUKARYOTIC RIBOSOMAL PI TRNACW76Saccharomyces cerevisiae
Entity ID: 85
MoleculeChainsLengthOrganism
5'-R(*AP*UP*GP)-3'CX3Saccharomyces cerevisiae
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A0, A1, A3, A5, Bj, Bm
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
OHX
Query on OHX

Download SDF File 
Download CCD File 
A3, A6, AC, AI, AL, AN, AP, B2, B5, B7, Bn, BR, CV, CX
osmium (III) hexammine
osmium(6+) hexaazanide
H12 N6 Os
OWCQTVJQFLTQTE-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A0, A3, A5, AB, AC, AE, AG, AI, AJ, AL, AN, AP, AS, AU, B2, B5, B7, BD, BF, BS, CW
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
GCP
Query on GCP

Download SDF File 
Download CCD File 
CV
PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
C11 H18 N5 O13 P3
PHBDHXOBFUBCJD-KQYNXXCUSA-N
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
A5, A7, BK, Br, Bs
L-PEPTIDE LINKINGC4 H9 N O2

--

N
Query on N
B2
RNA LINKINGC5 H11 O7 P

--

HSO
Query on HSO
CV
L-PEPTIDE LINKINGC6 H12 N3 OHIS
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.6 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-07-09
    Type: Initial release
  • Version 1.1: 2014-12-10
    Type: Other
  • Version 1.2: 2015-04-22
    Type: Other
  • Version 2.0: 2017-08-02
    Type: Advisory, Atomic model, Data collection, Derived calculations
  • Version 3.0: 2018-04-18
    Type: Atomic model, Data collection, Database references, Other, Structure summary