Brand  (β version)

PDB ID: 4V68

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Ligands
Code Name Style Show Link
BME Beta-mercaptoethanol PoSSuM
GDP Guanosine-5'-diphosphate PoSSuM
MAU N-methyl kirromycin PoSSuM
PHA Phenylalaninal PoSSuM
Non-standard Residues
Code Name Show
1MA 6-hydro-1-methyladenosine-5'-monophosphate
2MG 2n-methylguanosine-5'-monophosphate
5MC 5-methylcytidine-5'-monophosphate
5MU 5-methyluridine 5'-monophosphate
7MG 7n-methyl-8-hydroguanosine-5'-monophosphate
M2G N2-dimethylguanosine-5'-monophosphate
OMC O2'-methylycytidine-5'-monophosphate
OMG O2'-methylguanosine-5'-monophosphate
PSU Pseudouridine-5'-monophosphate
YG Wybutosine
Glycosylation
Code Name Emphasize
Modification
Code Name Show
K Potassium ion

Structure summary

Code : 4V68   PDBj   RCSB PDB   PDBe
Header : RIBOSOME
Title : T. thermophilus 70S ribosome in complex with mRNA, tRNAs and EF-Tu.GDP.kirromycin ternary complex, fitted to a 6.4 A Cryo-EM map.
Release Data : 2014-07-09
Compound :
mol_id molecule chains
1 16S rRNA AA
mol_id molecule chains
2 30S ribosomal protein S2 AB
mol_id molecule chains
3 30S ribosomal protein S4 AD
mol_id molecule chains
4 30S ribosomal protein S5 AE
mol_id molecule chains
5 30S ribosomal protein S6 AF
mol_id molecule chains
6 30S ribosomal protein S8 AH
mol_id molecule chains
7 30S ribosomal protein S11 AK
mol_id molecule chains
8 30S ribosomal protein S12 AL
mol_id molecule chains
9 30S ribosomal protein S15 AO
mol_id molecule chains
10 30S ribosomal protein S16 AP
mol_id molecule chains
11 30S ribosomal protein S17 AQ
mol_id molecule chains
12 30S ribosomal protein S18 AR
mol_id molecule chains
13 30S ribosomal protein S20 AT
mol_id molecule chains
14 30S ribosomal protein S3 AC
mol_id molecule chains
15 30S ribosomal protein S7 AG
mol_id molecule chains
16 30S ribosomal protein S9 AI
mol_id molecule chains
17 30S ribosomal protein S10 AJ
mol_id molecule chains
18 30S ribosomal protein S13 AM
mol_id molecule chains
19 30S ribosomal protein S14 AN
mol_id molecule chains
20 30S ribosomal protein S19 AS
mol_id molecule chains
21 30S ribosomal protein Thx AU
mol_id molecule chains
22 P-SITE TRNA AV
mol_id molecule chains
23 SYNTHETIC MRNA AX
mol_id molecule chains
24 E-SITE TRNA AW
mol_id molecule chains
25 AT-SITE TRNA AY
mol_id molecule chains
26 MRNA CODON A0
mol_id molecule chains
27 Elongation factor Tu-A AZ
mol_id molecule chains
28 50S ribosomal protein L27 B0
mol_id molecule chains
29 50S ribosomal protein L28 B1
mol_id molecule chains
30 50S ribosomal protein L29 B2
mol_id molecule chains
31 50S ribosomal protein L30 B3
mol_id molecule chains
32 50S ribosomal protein L31 B4
mol_id molecule chains
33 50S ribosomal protein L32 B5
mol_id molecule chains
34 50S ribosomal protein L33 B6
mol_id molecule chains
35 50S ribosomal protein L34 B7
mol_id molecule chains
36 50S ribosomal protein L35 B8
mol_id molecule chains
37 50S ribosomal protein L36 B9
mol_id molecule chains
38 23S rRNA BA
mol_id molecule chains
39 5S rRNA BB
mol_id molecule chains
40 50S ribosomal protein L1 BC
mol_id molecule chains
41 50S ribosomal protein L2 BD
mol_id molecule chains
42 50S ribosomal protein L3 BE
mol_id molecule chains
43 50S ribosomal protein L4 BF
mol_id molecule chains
44 50S ribosomal protein L5 BG
mol_id molecule chains
45 50S ribosomal protein L6 BH
mol_id molecule chains
46 50S ribosomal protein L9 BI
mol_id molecule chains
47 50S ribosomal protein L11 BL
mol_id molecule chains
48 50S ribosomal protein L13 BN
mol_id molecule chains
49 50S ribosomal protein L14 BO
mol_id molecule chains
50 50S ribosomal protein L15 BP
mol_id molecule chains
51 50S ribosomal protein L16 BQ
mol_id molecule chains
52 50S ribosomal protein L17 BR
mol_id molecule chains
53 50S ribosomal protein L18 BS
mol_id molecule chains
54 50S ribosomal protein L19 BT
mol_id molecule chains
55 50S ribosomal protein L20 BU
mol_id molecule chains
56 50S ribosomal protein L21 BV
mol_id molecule chains
57 50S ribosomal protein L22 BW
mol_id molecule chains
58 50S ribosomal protein L23 BX
mol_id molecule chains
59 50S ribosomal protein L24 BY
mol_id molecule chains
60 50S ribosomal protein L25 BZ
Source :
mol_id organism_scientific
1 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
2 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
3 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
4 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
5 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
6 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
7 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
8 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
9 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
10 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
11 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
12 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
13 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
14 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
15 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
16 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
17 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
18 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
19 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
20 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
21 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
22 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
23
synthetic: yes
other_details: Chemically synthesized
mol_id organism_scientific
24 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
25 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
26
synthetic: yes
other_details: Chemically synthesized
mol_id organism_scientific
27 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
28 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
29 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
30 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
31 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
32 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
33 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
34 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
35 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
36 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
37 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
38 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
39 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
40 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
41 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
42 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
43 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
44 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
45 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
46 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
47 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
48 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
49 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
50 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
51 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
52 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
53 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
54 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
55 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
56 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
57 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
58 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
59 Thermus thermophilus  (taxid:274)
mol_id organism_scientific
60 Thermus thermophilus  (taxid:274)
Authors : Schuette, J.-C., Spahn, C.M.T.
Keywords : cryo-electron microscopy/elongation factor/GTPase/ribosome/translation, Ribonucleoprotein, Ribosomal protein, RNA-binding, rRNA-binding, Metal-binding, Zinc-finger, tRNA-binding, Elongation factor, GTP-binding, Nucleotide-binding, Phosphoprotein, Protein biosynthesis, RIBOSOME
Exp. method : ELECTRON MICROSCOPY ( 6.4 Å )
Citation :

GTPase activation of elongation factor EF-Tu by the ribosome during decoding

Schuette, J.C.,Murphy, F.V.,Kelley, A.C.  et al.
(2009)  Embo J.  28 : 755 - 765

PubMed: 19229291
DOI: 10.1038/emboj.2009.26

Reaction

Chain : AB
UniProt : P80371
Reaction : -
Chain : AD
UniProt : P80373
Reaction : -
Chain : AE
UniProt : Q5SHQ5
Reaction : -
Chain : AF
UniProt : Q5SLP8
Reaction : -
Chain : AH
UniProt : Q5SHQ2
Reaction : -
Chain : AK
UniProt : P80376
Reaction : -
Chain : AL
UniProt : Q5SHN3
Reaction : -
Chain : AO
UniProt : Q5SJ76
Reaction : -
Chain : AP
UniProt : Q5SJH3
Reaction : -
Chain : AQ
UniProt : Q5SHP7
Reaction : -
Chain : AR
UniProt : Q5SLQ0
Reaction : -
Chain : AT
UniProt : P80380
Reaction : -
Chain : AC
UniProt : P80372
Reaction : -
Chain : AG
UniProt : P17291
Reaction : -
Chain : AI
UniProt : P62669
Reaction : -
Chain : AJ
UniProt : Q5SHN7
Reaction : -
Chain : AM
UniProt : P80377
Reaction : -
Chain : AN
UniProt : Q5SHQ1
Reaction : -
Chain : AS
UniProt : Q5SHP2
Reaction : -
Chain : AU
UniProt : Q5SIH3
Reaction : -
Chain : A0
UniProt : Q5SHN6 (EFTU1_THET8)
Reaction: EC: Evidence:
Physiological Direction:
GTP + H2O = GDP + phosphate + H(+) 3.6.5.3 HAMAP-Rule:MF_00118
left-to-right
Chain : AZ
UniProt : P60339 (EFTU2_THET8)
Reaction: EC: Evidence:
Physiological Direction:
GTP + H2O = GDP + phosphate + H(+) 3.6.5.3 HAMAP-Rule:MF_00118
left-to-right
Chain : B0
UniProt : P60493 (RL27_THET8)
Reaction : -
Chain : B1
UniProt : P60494 (RL28_THET8)
Reaction : -
Chain : B2
UniProt : Q5SHP6
Reaction : -
Chain : B3
UniProt : Q5SHQ6
Reaction : -
Chain : B4
UniProt : Q5SJE1
Reaction : -
Chain : B5
UniProt : P80339
Reaction : -
Chain : B6
UniProt : P35871
Reaction : -
Chain : B7
UniProt : P80340
Reaction : -
Chain : B8
UniProt : P80341
Reaction : -
Chain : B9
UniProt : Q72I28
Reaction : -
Chain : BC
UniProt : Q5SLP7 (RL1_THET8)
Reaction : -
Chain : BD
UniProt : P60405
Reaction : -
Chain : BE
UniProt : Q5SHN8
Reaction : -
Chain : BF
UniProt : Q5SHN9
Reaction : -
Chain : BG
UniProt : Q5SHQ0
Reaction : -
Chain : BH
UniProt : Q5SHQ3
Reaction : -
Chain : BI
UniProt : Q5SLQ1
Reaction : -
Chain : BL
UniProt : P36238 (RL11_THETH)
Reaction : -
Chain : BN
UniProt : P60488 (RL13_THET8)
Reaction : -
Chain : BO
UniProt : Q5SHP8 (RL14_THET8)
Reaction : -
Chain : BP
UniProt : Q5SHQ7 (RL15_THET8)
Reaction : -
Chain : BQ
UniProt : P60489 (RL16_THET8)
Reaction : -
Chain : BR
UniProt : Q9Z9H5 (RL17_THET8)
Reaction : -
Chain : BS
UniProt : Q5SHQ4 (RL18_THET8)
Reaction : -
Chain : BT
UniProt : P60490 (RL19_THET8)
Reaction : -
Chain : BU
UniProt : P60491 (RL20_THET8)
Reaction : -
Chain : BV
UniProt : P60492 (RL21_THET8)
Reaction : -
Chain : BW
UniProt : Q5SHP3 (RL22_THET8)
Reaction : -
Chain : BX
UniProt : Q5SHP0 (RL23_THET8)
Reaction : -
Chain : BY
UniProt : Q5SHP9 (RL24_THET8)
Reaction : -
Chain : BZ
UniProt : Q5SHZ1 (RL25_THET8)
Reaction : -