Brand  (β version)

PDB ID: 4WQ1

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Ligands
Code Name Style Show Link
MG Magnesium ion PoSSuM
ZN Zinc ion PoSSuM
Non-standard Residues
Code Name Show
4SU 4-thiouridine-5'-monophosphate
OMG O2'-methylguanosine-5'-monophosphate
QUO 2-amino-7-deaza-(2'',3''-dihydroxy-cyclopentylamino)-guanosine-5'-monophosphate
MIA 2-methylthio-n6-isopentenyl-adenosine-5'-monophosphate
PSU Pseudouridine-5'-monophosphate
5MU 5-methyluridine 5'-monophosphate
H2U 5,6-dihydrouridine-5'-monophosphate
OMC O2'-methylycytidine-5'-monophosphate
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 4WQ1   PDBj   RCSB PDB   PDBe
Header : RIBOSOME
Title : Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site.
Release Data : 2015-06-10
Compound :
mol_id molecule chains
1 16S ribosomal RNA 13
mol_id molecule chains
2 30S ribosomal protein S2 1E,12
mol_id molecule chains
3 30S ribosomal protein S3 2E,22
mol_id molecule chains
4 30S ribosomal protein S4 3E,32
mol_id molecule chains
5 30S ribosomal protein S5 4E,42
mol_id molecule chains
6 30S ribosomal protein S6 5E,52
mol_id molecule chains
7 30S ribosomal protein S7 6E,62
mol_id molecule chains
8 30S ribosomal protein S8 7E,72
mol_id molecule chains
9 30S ribosomal protein S9 8E,82
mol_id molecule chains
10 30S ribosomal protein S10 1I,1A
mol_id molecule chains
11 30S ribosomal protein S11 2I,2A
mol_id molecule chains
12 30S ribosomal protein S12 3I,3A
mol_id molecule chains
13 30S ribosomal protein S13 4I,4A
mol_id molecule chains synonym
14 30S ribosomal protein S14 type Z 5I,5A 30S ribosomal protein S14
mol_id molecule chains
15 30S ribosomal protein S15 6I,6A
mol_id molecule chains
16 30S ribosomal protein S16 7I,7A
mol_id molecule chains
17 30S ribosomal protein S17 8I,8A
mol_id molecule chains
18 30S ribosomal protein S18 9I,9A
mol_id molecule chains
19 30S ribosomal protein S19 AI,AA
mol_id molecule chains
20 30S ribosomal protein S20 BI,BA
mol_id molecule chains
21 30S ribosomal protein Thx 1F,1B
mol_id molecule chains
22 tRNA-Tyr 1K,3K,1L,3L
mol_id molecule chains synonym
23 tRNA-fMET 2K,2L tRNA-fMET
mol_id molecule chains
24 mRNA 4K,4L
mol_id molecule chains
25 23S ribosomal RNA 1H,14
mol_id molecule chains synonym
26 5S ribosomal RNA 16,1J 5S rRNA
mol_id molecule chains
27 50S ribosomal protein L2 11
mol_id molecule chains
28 50S ribosomal protein L3 21,29
mol_id molecule chains synonym
29 50S ribosomal protein L4 31 L1e
mol_id molecule chains
30 50S ribosomal protein L5 41,49
mol_id molecule chains
31 50S ribosomal protein L6 51,59
mol_id molecule chains
32 50S ribosomal protein L9 61,69
mol_id molecule chains
33 50S ribosomal protein L13 58,15
mol_id molecule chains
34 50S ribosomal protein L14 68,25
mol_id molecule chains
35 50S ribosomal protein L15 78,35
mol_id molecule chains
36 50S ribosomal protein L16 88,45
mol_id molecule chains
37 50S ribosomal protein L17 98,55
mol_id molecule chains
38 50S ribosomal protein L18 A8,65
mol_id molecule chains
39 50S ribosomal protein L19 B8,75
mol_id molecule chains
40 50S ribosomal protein L20 C8,85
mol_id molecule chains
41 50S ribosomal protein L21 D8,95
mol_id molecule chains
42 50S ribosomal protein L22 E8,A5
mol_id molecule chains
43 50S ribosomal protein L23 F8,B5
mol_id molecule chains
44 50S ribosomal protein L24 G8,C5
mol_id molecule chains synonym
45 50S ribosomal protein L25 H8 General stress protein CTC
mol_id molecule chains
46 50S ribosomal protein L27 I8,E5
mol_id molecule chains
47 50S ribosomal protein L28 J8,F5
mol_id molecule chains
48 50S ribosomal protein L29 K8,G5
mol_id molecule chains
49 50S ribosomal protein L30 L8,H5
mol_id molecule chains
50 50S ribosomal protein L31 M8,I5
mol_id molecule chains
51 50S ribosomal protein L32 N8,J5
mol_id molecule chains
52 50S ribosomal protein L33 O8,K5
mol_id molecule chains
53 50S ribosomal protein L34 P8,L5
mol_id molecule chains
54 50S ribosomal protein L35 Q8
mol_id molecule chains
55 16S ribosomal RNA 1G
mol_id molecule chains
56 50S ribosomal protein L2 19
mol_id molecule chains synonym
57 50S ribosomal protein L4 39 L1e
mol_id molecule chains synonym
58 50S ribosomal protein L25 D5 General stress protein CTC
mol_id molecule chains
59 50S ribosomal protein L35 M5
Source :
mol_id organism_scientific
1 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
2 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
3 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
4 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
5 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
6 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
7 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
8 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
9 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
10 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
11 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
12 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
13 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
14 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
15 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
16 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
17 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
18 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
19 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
20 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
21 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
22 Escherichia coli K-12  (taxid:83333)
mol_id organism_scientific
23 Escherichia coli K-12  (taxid:83333)
mol_id organism_scientific
24 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
25 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
26 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
27 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
28 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
29 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
30 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
31 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
32 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
33 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
34 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
35 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
36 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
37 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
38 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
39 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
40 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
41 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
42 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
43 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
44 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
45 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
46 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
47 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
48 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
49 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
50 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
51 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
52 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
53 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
54 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
55 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
56 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
57 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
58 Thermus thermophilus HB8  (taxid:300852)
mol_id organism_scientific
59 Thermus thermophilus HB8  (taxid:300852)
Authors : Rozov, A., Demeshkina, N., Yusupov, M., Yusupova, G.
Keywords : ribosome, translation, mismatch
Exp. method : X-RAY DIFFRACTION ( 3.10 Å )
Citation :

Structural insights into the translational infidelity mechanism.

Rozov, A.,Demeshkina, N.,Westhof, E.  et al.
(2015)  Nat Commun  6 : 7251 - 7251

PubMed: 26037619
DOI: 10.1038/ncomms8251

Reaction

Chain : 1E, 12
UniProt : P62662 (RS2_THET2)
Reaction : -
Chain : 2E, 22
UniProt : P62663 (RS3_THET2)
Reaction : -
Chain : 3E, 32
UniProt : P62664 (RS4_THET2)
Reaction : -
Cofactor: Evidence: Note:
Zn(2+) ECO:0000250
Binds 1 zinc ion per subunit.
Chain : 4E, 42
UniProt : P62665 (RS5_THET2)
Reaction : -
Chain : 5E, 52
UniProt : P62666 (RS6_THET2)
Reaction : -
Chain : 6E, 62
UniProt : P62667 (RS7_THET2)
Reaction : -
Chain : 7E, 72
UniProt : P62668 (RS8_THET2)
Reaction : -
Chain : 8E, 82
UniProt : P80374 (RS9_THET8)
Reaction : -
Chain : 1I, 1A
UniProt : P62653 (RS10_THET2)
Reaction : -
Chain : 2I, 2A
UniProt : P62654 (RS11_THET2)
Reaction : -
Chain : 3I, 3A
UniProt : P61941 (RS12_THET2)
Reaction : -
Chain : 4I, 4A
UniProt : P62655 (RS13_THET2)
Reaction : -
Chain : 5I, 5A
UniProt : P62656 (RS14Z_THET2)
Reaction : -
Cofactor: Evidence: Note:
Zn(2+) ECO:0000255 | HAMAP-Rule:MF_01364
Binds 1 zinc ion per subunit.
Chain : 6I, 6A
UniProt : P62657 (RS15_THET2)
Reaction : -
Chain : 7I, 7A
UniProt : P62238 (RS16_THET2)
Reaction : -
Chain : 8I, 8A
UniProt : Q5SHP7 (RS17_THET8)
Reaction : -
Chain : 9I, 9A
UniProt : P62659 (RS18_THET2)
Reaction : -
Chain : AI, AA
UniProt : P62660 (RS19_THET2)
Reaction : -
Chain : BI, BA
UniProt : P80380 (RS20_THET8)
Reaction : -
Chain : 1F, 1B
UniProt : P62613 (RSHX_THET2)
Reaction : -
Chain : 19
UniProt : Q72I07 (RL2_THET2)
Reaction : -
Chain : 21, 29
UniProt : Q72I04 (RL3_THET2)
Reaction : -
Chain : 39
UniProt : Q5SHN9 (RL4_THET8)
Reaction : -
Chain : 41, 49
UniProt : Q5SHQ0 (RL5_THET8)
Reaction : -
Chain : 51, 59
UniProt : Q72I19 (RL6_THET2)
Reaction : -
Chain : 61, 69
UniProt : Q5SLQ1 (RL9_THET8)
Reaction : -
Chain : 58, 15
UniProt : Q72IN1 (RL13_THET2)
Reaction : -
Chain : 68, 25
UniProt : Q5SHP8 (RL14_THET8)
Reaction : -
Chain : 78, 35
UniProt : Q72I23 (RL15_THET2)
Reaction : -
Chain : 88, 45
UniProt : P60489 (RL16_THET8)
Reaction : -
Chain : 98, 55
UniProt : Q72I33 (RL17_THET2)
Reaction : -
Chain : A8, 65
UniProt : Q72I20 (RL18_THET2)
Reaction : -
Chain : B8, 75
UniProt : P60490 (RL19_THET8)
Reaction : -
Chain : C8, 85
UniProt : Q72L76 (RL20_THET2)
Reaction : -
Chain : D8, 95
UniProt : Q72HR2 (RL21_THET2)
Reaction : -
Chain : E8, A5
UniProt : Q72I09 (RL22_THET2)
Reaction : -
Chain : F8, B5
UniProt : Q72I06 (RL23_THET2)
Reaction : -
Chain : G8, C5
UniProt : Q72I15 (RL24_THET2)
Reaction : -
Chain : D5
UniProt : Q72IA7 (RL25_THET2)
Reaction : -
Chain : I8, E5
UniProt : P60493 (RL27_THET8)
Reaction : -
Chain : J8, F5
UniProt : P60494 (RL28_THET8)
Reaction : -
Chain : K8, G5
UniProt : Q72I12 (RL29_THET2)
Reaction : -
Chain : L8, H5
UniProt : Q72I22 (RL30_THET2)
Reaction : -
Chain : M8, I5
UniProt : Q72JR0 (RL31_THET2)
Reaction : -
Cofactor: Evidence: Note:
Zn(2+) ECO:0000255 | HAMAP-Rule:MF_00501
Binds 1 zinc ion per subunit.
Chain : N8, J5
UniProt : P80339 (RL32_THET8)
Reaction : -
Chain : O8, K5
UniProt : Q72GW3 (RL33_THET2)
Reaction : -
Chain : P8, L5
UniProt : P80340 (RL34_THET8)
Reaction : -
Chain : M5
UniProt : Q72L77 (RL35_THET2)
Reaction : -