Brand  (β version)

PDB ID: 4V9L

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Ligands
Code Name Style Show Link
FUA Fusidic acid PoSSuM
GDP Guanosine-5'-diphosphate PoSSuM
MG Magnesium ion PoSSuM
Non-standard Residues
Code Name Show
KBE Beta-lysine
DPP Diaminopropanoic acid
UAL (2z)-2-amino-3-(carbamoylamino)prop-2-enoic acid
5OH (2s)-amino[(4r,6s)-2-amino-6-hydroxy-3,4,5,6-tetrahydropyrimidin-4-yl]ethanoic acid
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 4V9L   PDBj   RCSB PDB   PDBe
Header : RIBOSOME/ANTIBIOTIC
Title : 70S Ribosome translocation intermediate FA-3.6A containing elongation factor EFG/FUSIDIC ACID/GDP, mRNA, and tRNA bound in the pe*/E state.
Release Data : 2014-07-09
Compound :
mol_id molecule chains
1 30S ribosomal protein S2 AB,CB
mol_id molecule chains
2 30S ribosomal protein S3 AC,CC
mol_id molecule chains
3 30S ribosomal protein S4 AD,CD
mol_id molecule chains
4 30S ribosomal protein S5 AE,CE
mol_id molecule chains
5 30S ribosomal protein S6 AF,CF
mol_id molecule chains
6 30S ribosomal protein S7 AG,CG
mol_id molecule chains
7 30S ribosomal protein S8 AH,CH
mol_id molecule chains
8 30S ribosomal protein S9 AI,CI
mol_id molecule chains
9 30S ribosomal protein S10 AJ,CJ
mol_id molecule chains
10 30S ribosomal protein S11 AK,CK
mol_id molecule chains
11 30S ribosomal protein S12 AL,CL
mol_id molecule chains
12 30S ribosomal protein S13 AM,CM
mol_id molecule chains
13 30S ribosomal protein S14 type Z AN,CN
mol_id molecule chains
14 30S ribosomal protein S15 AO,CO
mol_id molecule chains
15 30S ribosomal protein S16 AP,CP
mol_id molecule chains
16 30S ribosomal protein S17 AQ,CQ
mol_id molecule chains
17 30S ribosomal protein S18 AR,CR
mol_id molecule chains
18 30S ribosomal protein S19 AS,CS
mol_id molecule chains
19 30S ribosomal protein S20 AT,CT
mol_id molecule chains
20 ribosomal RNA 16S AA,CA
mol_id molecule chains
21 transfer RNA AW,CW
mol_id molecule chains
22 messenger RNA AV,CV
mol_id molecule chains
23 Elongation factor G AY,CY
mol_id molecule chains
24 VIOMYCIN AU,CU
mol_id molecule chains
25 50S ribosomal protein L1 BC,DC
mol_id molecule chains
26 50S ribosomal protein L2 BD,DD
mol_id molecule chains
27 50S ribosomal protein L3 BE,DE
mol_id molecule chains
28 50S ribosomal protein L4 BF,DF
mol_id molecule chains
29 50S ribosomal protein L5 BG,DG
mol_id molecule chains
30 50S ribosomal protein L6 BH,DH
mol_id molecule chains
31 50S RIBOSOMAL PROTEIN L10 BJ,DJ
mol_id molecule chains
32 50S ribosomal protein L11 BK,DK
mol_id molecule chains
33 50S ribosomal protein L13 BN,DN
mol_id molecule chains
34 50S ribosomal protein L14 BO,DO
mol_id molecule chains
35 50S ribosomal protein L15 BP,DP
mol_id molecule chains
36 50S ribosomal protein L16 BQ,DQ
mol_id molecule chains
37 50S ribosomal protein L17 BR,DR
mol_id molecule chains
38 50S ribosomal protein L18 BS,DS
mol_id molecule chains
39 50S ribosomal protein L19 BT,DT
mol_id molecule chains
40 50S ribosomal protein L20 BU,DU
mol_id molecule chains
41 50S ribosomal protein L21 BV,DV
mol_id molecule chains
42 50S ribosomal protein L22 BW,DW
mol_id molecule chains
43 50S ribosomal protein L23 BX,DX
mol_id molecule chains
44 50S ribosomal protein L24 BY,DY
mol_id molecule chains
45 50S ribosomal protein L25 BZ,DZ
mol_id molecule chains
46 50S ribosomal protein L27 B0,D0
mol_id molecule chains
47 50S ribosomal protein L29 B2,D2
mol_id molecule chains
48 50S ribosomal protein L30 B3,D3
mol_id molecule chains
49 50S ribosomal protein L32 B5,D5
mol_id molecule chains
50 50S ribosomal protein L33 B6,D6
mol_id molecule chains
51 50S ribosomal protein L34 B7,D7
mol_id molecule chains
52 50S ribosomal protein L35 B8,D8
mol_id molecule chains
53 50S ribosomal protein L36 B9,D9
mol_id molecule chains
54 50S ribosomal protein L7/L12 Be,De
mol_id molecule chains
55 50S RIBOSOMAL PROTEIN L7/L12 Bf,Bg,Df,Dg
mol_id molecule chains
56 50S RIBOSOMAL PROTEIN L7/L12 Bh,Dh
mol_id molecule chains
57 50S ribosomal protein L28 B1,D1
mol_id molecule chains
58 50S ribosomal protein L31 B4,D4
mol_id molecule chains
59 23S ribosomal RNA BA,DA
mol_id molecule chains
60 5S ribosomal RNA BB,DB
Source :
mol_id organism_scientific
1 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
2 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
3 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
4 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
5 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
6 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
7 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
8 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
9 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
10 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
11 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
12 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
13 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
14 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
15 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
16 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
17 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
18 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
19 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
20 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
21 Escherichia coli  (taxid:562)
mol_id organism_scientific
22 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
23 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
24 Streptomyces  (taxid:1883)
mol_id organism_scientific
25 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
26 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
27 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
28 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
29 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
30 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
31 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
32 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
33 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
34 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
35 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
36 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
37 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
38 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
39 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
40 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
41 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
42 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
43 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
44 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
45 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
46 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
47 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
48 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
49 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
50 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
51 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
52 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
53 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
54 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
55 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
56 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
57 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
58 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
59 Thermus thermophilus  (taxid:262724)
strain: HB27
mol_id organism_scientific
60 Thermus thermophilus  (taxid:262724)
strain: HB27
Authors : Zhou, J., Lancaster, L., Donohue, J.P., Noller, H.F.
Keywords : FUSIDIC ACID GDP, CHIMERIC HYBRID STATE RIBOSOME, RIBOSOME, TRANSLOCATION INTERMEDIATE, EF-G, MRNA, TRNA, RIBOSOME-ANTIBIOTIC complex
Exp. method : X-RAY DIFFRACTION ( 3.5 Å )
Citation :

Crystal structures of EF-G-ribosome complexes trapped in intermediate states of translocation.

Zhou, J.,Lancaster, L.,Donohue, J.P.  et al.
(2013)  Science  340 : 1236086 - 1236086

PubMed: 23812722
DOI: 10.1126/science.1236086

Reaction

Chain : AB, CB
UniProt : P62662 (RS2_THET2)
Reaction : -
Chain : AC, CC
UniProt : P62663 (RS3_THET2)
Reaction : -
Chain : AD, CD
UniProt : P62664 (RS4_THET2)
Reaction : -
Chain : AE, CE
UniProt : P62665 (RS5_THET2)
Reaction : -
Chain : AF, CF
UniProt : P62666 (RS6_THET2)
Reaction : -
Chain : AG, CG
UniProt : P62667 (RS7_THET2)
Reaction : -
Chain : AH, CH
UniProt : P62668 (RS8_THET2)
Reaction : -
Chain : AI, CI
UniProt : P62669 (RS9_THET2)
Reaction : -
Chain : AJ, CJ
UniProt : P62653 (RS10_THET2)
Reaction : -
Chain : AK, CK
UniProt : P62654 (RS11_THET2)
Reaction : -
Chain : AL, CL
UniProt : P61941 (RS12_THET2)
Reaction : -
Chain : AM, CM
UniProt : P62655 (RS13_THET2)
Reaction : -
Chain : AN, CN
UniProt : P62656 (RS14Z_THET2)
Reaction : -
Chain : AO, CO
UniProt : P62657 (RS15_THET2)
Reaction : -
Chain : AP, CP
UniProt : P62238 (RS16_THET2)
Reaction : -
Chain : AQ, CQ
UniProt : P62658 (RS17_THET2)
Reaction : -
Chain : AR, CR
UniProt : P62659 (RS18_THET2)
Reaction : -
Chain : AS, CS
UniProt : P62660 (RS19_THET2)
Reaction : -
Chain : AT, CT
UniProt : P62661 (RS20_THET2)
Reaction : -
Chain : AY, CY
UniProt : Q72I01 (EFG_THET2)
Reaction : -
Chain : BC, DC
UniProt : Q72GV9 (RL1_THET2)
Reaction : -
Chain : BD, DD
UniProt : Q72I07 (RL2_THET2)
Reaction : -
Chain : BE, DE
UniProt : Q72I04 (RL3_THET2)
Reaction : -
Chain : BF, DF
UniProt : Q72I05 (RL4_THET2)
Reaction : -
Chain : BG, DG
UniProt : Q72I16 (RL5_THET2)
Reaction : -
Chain : BH, DH
UniProt : Q72I19 (RL6_THET2)
Reaction : -
Chain : BK, DK
UniProt : P62442 (RL11_THET2)
Reaction : -
Chain : BN, DN
UniProt : Q72IN1 (RL13_THET2)
Reaction : -
Chain : BO, DO
UniProt : Q72I14 (RL14_THET2)
Reaction : -
Chain : BP, DP
UniProt : Q72I23 (RL15_THET2)
Reaction : -
Chain : BQ, DQ
UniProt : Q72I11 (RL16_THET2)
Reaction : -
Chain : BR, DR
UniProt : Q72I33 (RL17_THET2)
Reaction : -
Chain : BS, DS
UniProt : Q72I20 (RL18_THET2)
Reaction : -
Chain : BT, DT
UniProt : Q72JU9 (RL19_THET2)
Reaction : -
Chain : BU, DU
UniProt : Q72L76 (RL20_THET2)
Reaction : -
Chain : BV, DV
UniProt : Q72HR2 (RL21_THET2)
Reaction : -
Chain : BW, DW
UniProt : Q72I09 (RL22_THET2)
Reaction : -
Chain : BX, DX
UniProt : Q72I06 (RL23_THET2)
Reaction : -
Chain : BY, DY
UniProt : Q72I15 (RL24_THET2)
Reaction : -
Chain : BZ, DZ
UniProt : Q72IA7 (RL25_THET2)
Reaction : -
Chain : B0, D0
UniProt : Q72HR3 (RL27_THET2)
Reaction : -
Chain : B2, D2
UniProt : Q72I12 (RL29_THET2)
Reaction : -
Chain : B3, D3
UniProt : Q72I22 (RL30_THET2)
Reaction : -
Chain : B5, D5
UniProt : P62652 (RL32_THET2)
Reaction : -
Chain : B6, D6
UniProt : Q72GW3 (RL33_THET2)
Reaction : -
Chain : B7, D7
UniProt : P80340 (RL34_THET8)
Reaction : -
Chain : B8, D8
UniProt : Q72L77 (RL35_THET2)
Reaction : -
Chain : B9, D9
UniProt : Q72I28 (RL36_THET2)
Reaction : -
Chain : Be, De
UniProt : Q72GS2 (RL7_THET2)
Reaction : -
Chain : B1, D1
UniProt : Q72G84 (RL28_THET2)
Reaction : -
Chain : B4, D4
UniProt : Q72JR0 (RL31_THET2)
Reaction : -