Brand  (β version)

PDB ID: 4W2E

Hetero Atom Contents

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Ligands
Code Name Style Show Link
GDP Guanosine-5'-diphosphate PoSSuM
MG Magnesium ion PoSSuM
PHE Phenylalanine PoSSuM
SF4 Iron/sulfur cluster PoSSuM
ZN Zinc ion PoSSuM
Non-standard Residues
Code Name Show
4SU 4-thiouridine-5'-monophosphate
5MU 5-methyluridine 5'-monophosphate
7MG 7n-methyl-8-hydroguanosine-5'-monophosphate
MIA 2-methylthio-n6-isopentenyl-adenosine-5'-monophosphate
PSU Pseudouridine-5'-monophosphate
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 4W2E   PDBj   RCSB PDB   PDBe
Header : RIBOSOME
Title : Crystal structure of Elongation Factor 4 (EF4/LepA) bound to the Thermus thermophilus 70S ribosome
Release Data : 2014-10-01
Compound :
mol_id molecule chains
1 23S Ribosomal RNA A
mol_id molecule chains
2 5S Ribosomal RNA B
mol_id molecule chains
3 50S ribosomal protein L2 D
mol_id molecule chains
4 50S ribosomal protein L3 E
mol_id molecule chains synonym
5 50S ribosomal protein L4 F L1e
mol_id molecule chains
6 50S ribosomal protein L5 G
mol_id molecule chains
7 50S ribosomal protein L6 H
mol_id molecule chains
8 50S ribosomal protein L10 J
mol_id molecule chains
9 50S ribosomal protein L11 K
mol_id molecule chains
10 50S ribosomal protein L13 N
mol_id molecule chains
11 50S ribosomal protein L14 O
mol_id molecule chains
12 50S ribosomal protein L15 P
mol_id molecule chains synonym
13 50S ribosomal protein L16 Q TL24
mol_id molecule chains
14 50S ribosomal protein L17 R
mol_id molecule chains
15 50S ribosomal protein L18 S
mol_id molecule chains
16 50S ribosomal protein L19 T
mol_id molecule chains
17 50S ribosomal protein L20 U
mol_id molecule chains
18 50S ribosomal protein L21 V
mol_id molecule chains
19 50S ribosomal protein L22 W
mol_id molecule chains synonym
20 50S ribosomal protein L23 X TL5
mol_id molecule chains
21 50S ribosomal protein L24 Y
mol_id molecule chains
22 50S ribosomal protein L25 Z
mol_id molecule chains
23 50S ribosomal protein L27 0
mol_id molecule chains
24 50S ribosomal protein L28 1
mol_id molecule chains
25 50S ribosomal protein L29 2
mol_id molecule chains
26 50S ribosomal protein L30 3
mol_id molecule chains
27 50S ribosomal protein L31 4
mol_id molecule chains
28 50S ribosomal protein L32 5
mol_id molecule chains
29 50S ribosomal protein L33 6
mol_id molecule chains synonym
30 50S ribosomal protein L34 7 Ribosomal protein B
mol_id molecule chains
31 50S ribosomal protein L35 8
mol_id molecule chains
32 50S ribosomal protein L36 9
mol_id molecule chains
33 E-site tRNA x,w
mol_id molecule chains
34 16S Ribosomal RNA a
mol_id molecule chains
35 30S ribosomal protein S2 b
mol_id molecule chains
36 30S ribosomal protein S3 c
mol_id molecule chains
37 30S ribosomal protein S4 d
mol_id molecule chains
38 30S ribosomal protein S5 e
mol_id molecule chains synonym
39 30S ribosomal protein S6 f TS9
mol_id molecule chains
40 30S ribosomal protein S7 g
mol_id molecule chains
41 30S ribosomal protein S8 h
mol_id molecule chains
42 30S ribosomal protein S9 i
mol_id molecule chains
43 30S ribosomal protein S10 j
mol_id molecule chains
44 30S ribosomal protein S11 k
mol_id molecule chains
45 30S ribosomal protein S12 l
mol_id molecule chains
46 30S ribosomal protein S13 m
mol_id molecule chains
47 30S ribosomal protein S14 type Z n
mol_id molecule chains
48 30S ribosomal protein S15 o
mol_id molecule chains
49 30S ribosomal protein S16 p
mol_id molecule chains
50 30S ribosomal protein S17 q
mol_id molecule chains
51 30S ribosomal protein S18 r
mol_id molecule chains
52 30S ribosomal protein S19 s
mol_id molecule chains
53 30S ribosomal protein S20 t
mol_id molecule chains synonym
54 30S ribosomal protein Thx u S31
mol_id molecule chains
55 mRNA v
mol_id molecule chains synonym
56 50S ribosomal protein L9, Elongation factor 4 y EF-4, Ribosomal back-translocase LepA
Source :
mol_id organism_scientific
1 Thermus thermophilus  (taxid:274)
strain: HB8
mol_id organism_scientific
2 Thermus thermophilus  (taxid:274)
strain: HB8
mol_id organism_scientific
3 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
4 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
5 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
6 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
7 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
8 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
9 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
10 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
11 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
12 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
13 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
14 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
15 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
16 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
17 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
18 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
19 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
20 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
21 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
22 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
23 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
24 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
25 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
26 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
27 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
28 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
29 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
30 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
31 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
32 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific expression_system
33 Escherichia coli  (taxid:562) Escherichia coli  (taxid:562)
strain: MRE-600
expression_system_strain: MRE-600
mol_id organism_scientific
34 Thermus thermophilus  (taxid:274)
strain: HB8
mol_id organism_scientific
35 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
36 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
37 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
38 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
39 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
40 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
41 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
42 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
43 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
44 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
45 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
46 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
47 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
48 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
49 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
50 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
51 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
52 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
53 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
54 Thermus thermophilus  (taxid:300852)
strain: HB8
mol_id organism_scientific
55 Synthetic construct  (taxid:32630)
synthetic: yes
other_details: IDT-Synthesized mRNA
mol_id organism_scientific expression_system
56 Thermus thermophilus  (taxid:300852) Escherichia coli  (taxid:562)
strain: HB8
gene: rplI, TTHA0242, lepA, TTHA0741
expression_system_strain: BL21(DE3)
expression_system_vector_type: plasmid
expression_system_plasmid: pET28a
Authors : Gagnon, M.G., Lin, J., Steitz, T.A.
Keywords : EF4, LepA, Translation, elogation, acylated P-site tRNA, ribosome
Exp. method : X-RAY DIFFRACTION ( 2.90 Å )
Citation :

Crystal structure of elongation factor 4 bound to a clockwise ratcheted ribosome.

Gagnon, M.G.,Lin, J.,Bulkley, D.  et al.
(2014)  Science  345 : 684 - 687

PubMed: 25104389
DOI: 10.1126/science.1253525

Reaction

Chain : D
UniProt : P60405 (RL2_THET8)
Reaction : -
Chain : E
UniProt : Q5SHN8 (RL3_THET8)
Reaction : -
Chain : F
UniProt : Q5SHN9 (RL4_THET8)
Reaction : -
Chain : G
UniProt : Q5SHQ0 (RL5_THET8)
Reaction : -
Chain : H
UniProt : Q5SHQ3 (RL6_THET8)
Reaction : -
Chain : J
UniProt : Q8VVE3 (RL10_THET8)
Reaction : -
Chain : K
UniProt : Q5SLP6 (RL11_THET8)
Reaction : -
Chain : N
UniProt : P60488 (RL13_THET8)
Reaction : -
Chain : O
UniProt : Q5SHP8 (RL14_THET8)
Reaction : -
Chain : P
UniProt : Q5SHQ7 (RL15_THET8)
Reaction : -
Chain : Q
UniProt : P60489 (RL16_THET8)
Reaction : -
Chain : R
UniProt : Q9Z9H5 (RL17_THET8)
Reaction : -
Chain : S
UniProt : Q5SHQ4 (RL18_THET8)
Reaction : -
Chain : T
UniProt : P60490 (RL19_THET8)
Reaction : -
Chain : U
UniProt : P60491 (RL20_THET8)
Reaction : -
Chain : V
UniProt : P60492 (RL21_THET8)
Reaction : -
Chain : W
UniProt : Q5SHP3 (RL22_THET8)
Reaction : -
Chain : X
UniProt : Q5SHP0 (RL23_THET8)
Reaction : -
Chain : Y
UniProt : Q5SHP9 (RL24_THET8)
Reaction : -
Chain : Z
UniProt : Q5SHZ1 (RL25_THET8)
Reaction : -
Chain : 0
UniProt : P60493 (RL27_THET8)
Reaction : -
Chain : 1
UniProt : P60494 (RL28_THET8)
Reaction : -
Chain : 2
UniProt : Q5SHP6 (RL29_THET8)
Reaction : -
Chain : 3
UniProt : Q5SHQ6 (RL30_THET8)
Reaction : -
Chain : 4
UniProt : Q5SJE1 (RL31_THET8)
Reaction : -
Chain : 5
UniProt : P80339 (RL32_THET8)
Reaction : -
Chain : 6
UniProt : P35871 (RL33_THET8)
Reaction : -
Chain : 7
UniProt : P80340 (RL34_THET8)
Reaction : -
Chain : 8
UniProt : Q5SKU1 (RL35_THET8)
Reaction : -
Chain : 9
UniProt : Q5SHR2 (RL36_THET8)
Reaction : -
Chain : b
UniProt : P80371 (RS2_THET8)
Reaction : -
Chain : c
UniProt : P80372 (RS3_THET8)
Reaction : -
Chain : d
UniProt : P80373 (RS4_THET8)
Reaction : -
Chain : e
UniProt : Q5SHQ5 (RS5_THET8)
Reaction : -
Chain : f
UniProt : Q5SLP8 (RS6_THET8)
Reaction : -
Chain : g
UniProt : P17291 (RS7_THET8)
Reaction : -
Chain : h
UniProt : Q5SHQ2 (RS8_THET8)
Reaction : -
Chain : i
UniProt : P80374 (RS9_THET8)
Reaction : -
Chain : j
UniProt : Q5SHN7 (RS10_THET8)
Reaction : -
Chain : k
UniProt : P80376 (RS11_THET8)
Reaction : -
Chain : l
UniProt : Q5SHN3 (RS12_THET8)
Reaction : -
Chain : m
UniProt : P80377 (RS13_THET8)
Reaction : -
Chain : n
UniProt : Q5SHQ1 (RS14Z_THET8)
Reaction : -
Chain : o
UniProt : Q5SJ76 (RS15_THET8)
Reaction : -
Chain : p
UniProt : Q5SJH3 (RS16_THET8)
Reaction : -
Chain : q
UniProt : Q5SHP7 (RS17_THET8)
Reaction : -
Chain : r
UniProt : Q5SLQ0 (RS18_THET8)
Reaction : -
Chain : s
UniProt : Q5SHP2 (RS19_THET8)
Reaction : -
Chain : t
UniProt : P80380 (RS20_THET8)
Reaction : -
Chain : u
UniProt : Q5SIH3 (RSHX_THET8)
Reaction : -
Chain : y
UniProt : Q5SLQ1 (RL9_THET8)
Reaction : -
Chain : y
UniProt : Q5SKA7 (LEPA_THET8)
Reaction: EC: Evidence:
Physiological Direction:
GTP + H2O = GDP + H(+) + phosphate 3.6.5.n1 HAMAP-Rule:MF_00071
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