3J9Z

Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 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

Activation of GTP hydrolysis in mRNA-tRNA translocation by elongation factor G.

Li, W.Liu, Z.Koripella, R.K.Langlois, R.Sanyal, S.Frank, J.

(2015) Sci Adv 1: e1500169-e1500169

  • DOI: 10.1126/sciadv.1500169
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • During protein synthesis, elongation of the polypeptide chain by each amino acid is followed by a translocation step in which mRNA and transfer RNA (tRNA) are advanced by one codon. This crucial step is catalyzed by elongation factor G (EF-G), a guan ...

    During protein synthesis, elongation of the polypeptide chain by each amino acid is followed by a translocation step in which mRNA and transfer RNA (tRNA) are advanced by one codon. This crucial step is catalyzed by elongation factor G (EF-G), a guanosine triphosphatase (GTPase), and accompanied by a rotation between the two ribosomal subunits. A mutant of EF-G, H91A, renders the factor impaired in guanosine triphosphate (GTP) hydrolysis and thereby stabilizes it on the ribosome. We use cryogenic electron microscopy (cryo-EM) at near-atomic resolution to investigate two complexes formed by EF-G H91A in its GTP state with the ribosome, distinguished by the presence or absence of the intersubunit rotation. Comparison of these two structures argues in favor of a direct role of the conserved histidine in the switch II loop of EF-G in GTPase activation, and explains why GTP hydrolysis cannot proceed with EF-G bound to the unrotated form of the ribosome.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biophysics, Columbia University, 2-221 Blackwell, 165 West 168th Street, New York, NY 10032, USA ; Howard Hughes Medical Institute, Columbia University, New York, NY 10032, USA ; Department of Biological Sciences, Columbia University, New York, NY 10027, USA.



Macromolecules

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S10
SJ
103Escherichia coliMutation(s): 0 
Find proteins for P0A7R5 (Escherichia coli (strain K12))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S11
SK
128Escherichia coliMutation(s): 0 
Find proteins for P0A7R9 (Escherichia coli (strain K12))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S12
SL
123Escherichia coliMutation(s): 0 
Find proteins for P0A7S3 (Escherichia coli (strain K12))
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S13
SM
117Escherichia coliMutation(s): 0 
Find proteins for P0A7S9 (Escherichia coli (strain K12))
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S14
SN
100Escherichia coliMutation(s): 0 
Find proteins for P0AG59 (Escherichia coli (strain K12))
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S15
SO
88Escherichia coliMutation(s): 0 
Find proteins for Q8X9M2 (Escherichia coli O157:H7)
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S16
SP
82Escherichia coliMutation(s): 0 
Find proteins for P0A7T3 (Escherichia coli (strain K12))
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S17
SQ
83Escherichia coliMutation(s): 0 
Find proteins for P0AG63 (Escherichia coli (strain K12))
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S18
SR
74Escherichia coliMutation(s): 0 
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S19
SS
91Escherichia coliMutation(s): 0 
Find proteins for P0A7U3 (Escherichia coli (strain K12))
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S2
SB
240Escherichia coliMutation(s): 0 
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S20
ST
86Escherichia coliMutation(s): 0 
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S21
SU
70Escherichia coliMutation(s): 0 
Find proteins for P68679 (Escherichia coli (strain K12))
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S3
SC
232Escherichia coliMutation(s): 0 
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S4
SD
205Escherichia coliMutation(s): 0 
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S5
SE
166Escherichia coliMutation(s): 0 
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S6
SF
135Escherichia coliMutation(s): 0 
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S7
SG
178Escherichia coliMutation(s): 0 
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S8
SH
129Escherichia coliMutation(s): 0 
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S9
SI
129Escherichia coliMutation(s): 0 
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
Elongation factor G
S1
702Escherichia coliMutation(s): 1 
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L1
LC
234Escherichia coliMutation(s): 0 
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L19
LM
114Escherichia coliMutation(s): 0 
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L2
LN
272Escherichia coliMutation(s): 0 
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L20
LO
117Escherichia coliMutation(s): 0 
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L21
LP
103Escherichia coliMutation(s): 0 
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L22
LQ
110Escherichia coliMutation(s): 0 
Find proteins for P61175 (Escherichia coli (strain K12))
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L23
LR
100Escherichia coliMutation(s): 0 
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Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L24
LS
103Escherichia coliMutation(s): 0 
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Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L25
LT
94Escherichia coliMutation(s): 0 
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Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L27
LU
84Escherichia coliMutation(s): 0 
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Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L28
LV
77Escherichia coliMutation(s): 0 
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Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L10
LD
164Escherichia coliMutation(s): 0 
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Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L29
LW
63Escherichia coliMutation(s): 0 
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Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L3
LX
209Escherichia coliMutation(s): 0 
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Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L30
LY
58Escherichia coliMutation(s): 0 
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Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L32
L1
56Escherichia coliMutation(s): 0 
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Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L33
L2
54Escherichia coliMutation(s): 0 
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Entity ID: 44
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L34
L3
46Escherichia coliMutation(s): 0 
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Entity ID: 45
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L35
L4
64Escherichia coliMutation(s): 0 
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Entity ID: 46
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L36
L5
38Escherichia coliMutation(s): 0 
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Entity ID: 47
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L4
L6
201Escherichia coliMutation(s): 0 
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Entity ID: 48
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L11
LE
141Escherichia coliMutation(s): 0 
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Entity ID: 49
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L5
L7
178Escherichia coliMutation(s): 0 
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Entity ID: 50
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L6
L8
176Escherichia coliMutation(s): 0 
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Entity ID: 51
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L9
L9
149Escherichia coliMutation(s): 0 
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Entity ID: 52
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L13
LF
142Escherichia coliMutation(s): 0 
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Entity ID: 53
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L14
LG
123Escherichia coliMutation(s): 0 
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Entity ID: 54
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L15
LH
144Escherichia coliMutation(s): 0 
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Entity ID: 55
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L16
LI
136Escherichia coliMutation(s): 0 
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Entity ID: 56
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L17
LJ
127Escherichia coliMutation(s): 0 
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Entity ID: 57
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L18
LK
117Escherichia coliMutation(s): 0 
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Entity ID: 58
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L31
LZ
70Escherichia coliMutation(s): 0 
Find proteins for P0A7M9 (Escherichia coli (strain K12))
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Entity ID: 1
MoleculeChainsLengthOrganism
16S ribosomal RNASA1542Escherichia coli

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Entity ID: 2
MoleculeChainsLengthOrganism
P-tRNAS677Thermus thermophilus

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Entity ID: 3
MoleculeChainsLengthOrganism
E-tRNAS774Thermus thermophilus

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Entity ID: 25
MoleculeChainsLengthOrganism
23S ribosomal RNALA2904Escherichia coli

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Entity ID: 26
MoleculeChainsLengthOrganism
5S ribosomal RNALB120Escherichia coli
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download CCD File 
S1
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-07-01
    Type: Initial release
  • Version 1.1: 2015-08-12
    Changes: Database references
  • Version 1.2: 2018-07-18
    Changes: Data collection