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PDBsum entry 4kja

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protein dna_rna ligands metals Protein-protein interface(s) links
Ribosome/antibiotic PDB id
4kja
Jmol
Contents
Protein chains
218 a.a.
206 a.a.
205 a.a.
150 a.a.
100 a.a.
151 a.a.
129 a.a.
127 a.a.
98 a.a.
117 a.a.
123 a.a.
114 a.a.
96 a.a.
88 a.a.
82 a.a.
80 a.a.
55 a.a.
79 a.a.
85 a.a.
51 a.a.
689 a.a.
DNA/RNA
Ligands
KBE-DPP-SER-SER-
UAL-5OH
GCP
Metals
_MG ×44
Waters ×209
PDB id:
4kja
Name: Ribosome/antibiotic
Title: Control of ribosomal subunit rotation by elongation factor g
Structure: 16s rrna. Chain: a. 30s ribosomal protein s2. Chain: b. 30s ribosomal protein s3. Chain: c. 30s ribosomal protein s4. Chain: d. 30s ribosomal protein s5.
Source: Escherichia coli. Organism_taxid: 83333. Strain: k-12. Gene: fusa. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Streptomyces. Organism_taxid: 1883
Resolution:
2.90Å     R-factor:   0.215     R-free:   0.267
Authors: A.Pulk,J.H.D.Cate
Key ref: A.Pulk and J.H.Cate (2013). Control of ribosomal subunit rotation by elongation factor G. Science, 340, 1235970. PubMed id: 23812721 DOI: 10.1126/science.1235970
Date:
03-May-13     Release date:   17-Jul-13    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P0A7V0  (RS2_ECOLI) -  30S ribosomal protein S2
Seq:
Struc:
241 a.a.
218 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7V3  (RS3_ECOLI) -  30S ribosomal protein S3
Seq:
Struc:
233 a.a.
206 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7V8  (RS4_ECOLI) -  30S ribosomal protein S4
Seq:
Struc:
206 a.a.
205 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7W1  (RS5_ECOLI) -  30S ribosomal protein S5
Seq:
Struc:
167 a.a.
150 a.a.
Protein chain
Pfam   ArchSchema ?
P02358  (RS6_ECOLI) -  30S ribosomal protein S6
Seq:
Struc:
135 a.a.
100 a.a.
Protein chain
Pfam   ArchSchema ?
P02359  (RS7_ECOLI) -  30S ribosomal protein S7
Seq:
Struc:
179 a.a.
151 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7W7  (RS8_ECOLI) -  30S ribosomal protein S8
Seq:
Struc:
130 a.a.
129 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7X3  (RS9_ECOLI) -  30S ribosomal protein S9
Seq:
Struc:
130 a.a.
127 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7R5  (RS10_ECOLI) -  30S ribosomal protein S10
Seq:
Struc:
103 a.a.
98 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7R9  (RS11_ECOLI) -  30S ribosomal protein S11
Seq:
Struc:
129 a.a.
117 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7S3  (RS12_ECOLI) -  30S ribosomal protein S12
Seq:
Struc:
124 a.a.
123 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7S9  (RS13_ECOLI) -  30S ribosomal protein S13
Seq:
Struc:
118 a.a.
114 a.a.
Protein chain
Pfam   ArchSchema ?
P0AG59  (RS14_ECOLI) -  30S ribosomal protein S14
Seq:
Struc:
101 a.a.
96 a.a.
Protein chain
Pfam   ArchSchema ?
P0ADZ4  (RS15_ECOLI) -  30S ribosomal protein S15
Seq:
Struc:
89 a.a.
88 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7T3  (RS16_ECOLI) -  30S ribosomal protein S16
Seq:
Struc:
82 a.a.
82 a.a.
Protein chain
Pfam   ArchSchema ?
P0AG63  (RS17_ECOLI) -  30S ribosomal protein S17
Seq:
Struc:
84 a.a.
80 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7T7  (RS18_ECOLI) -  30S ribosomal protein S18
Seq:
Struc:
75 a.a.
55 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7U3  (RS19_ECOLI) -  30S ribosomal protein S19
Seq:
Struc:
92 a.a.
79 a.a.
Protein chain
Pfam   ArchSchema ?
P0A7U7  (RS20_ECOLI) -  30S ribosomal protein S20
Seq:
Struc:
87 a.a.
85 a.a.
Protein chain
Pfam   ArchSchema ?
P68679  (RS21_ECOLI) -  30S ribosomal protein S21
Seq:
Struc:
71 a.a.
51 a.a.
Protein chain
Pfam   ArchSchema ?
P0A6M8  (EFG_ECOLI) -  Elongation factor G
Seq:
Struc:
 
Seq:
Struc:
704 a.a.
689 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     intracellular   7 terms 
  Biological process     cytoplasmic translation   23 terms 
  Biochemical function     structural constituent of ribosome     23 terms  

 

 
DOI no: 10.1126/science.1235970 Science 340:1235970 (2013)
PubMed id: 23812721  
 
 
Control of ribosomal subunit rotation by elongation factor G.
A.Pulk, J.H.Cate.
 
  ABSTRACT  
 
Protein synthesis by the ribosome requires the translocation of transfer RNAs and messenger RNA by one codon after each peptide bond is formed, a reaction that requires ribosomal subunit rotation and is catalyzed by the guanosine triphosphatase (GTPase) elongation factor G (EF-G). We determined 3 angstrom resolution x-ray crystal structures of EF-G complexed with a nonhydrolyzable guanosine 5'-triphosphate (GTP) analog and bound to the Escherichia coli ribosome in different states of ribosomal subunit rotation. The structures reveal that EF-G binding to the ribosome stabilizes switch regions in the GTPase active site, resulting in a compact EF-G conformation that favors an intermediate state of ribosomal subunit rotation. These structures suggest that EF-G controls the translocation reaction by cycles of conformational rigidity and relaxation before and after GTP hydrolysis.