Brand  (β version)

PDB ID: 3JCE

Hetero Atom Contents

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Ligands
Code Name Style Show Link
GNP Phosphoaminophosphonic acid-guanylate ester PoSSuM
MG Magnesium ion PoSSuM
PHE Phenylalanine PoSSuM
Non-standard Residues
Code Name Show
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 3JCE   PDBj   RCSB PDB   PDBe
Header : RIBOSOME
Title : Structure of Escherichia coli EF4 in pretranslocational ribosomes (Pre EF4)
Release Data : 2016-01-13
Compound :
mol_id molecule chains
1 16S ribosomal RNA a
mol_id molecule chains synonym
2 30S ribosomal protein S3 c Small ribosomal subunit protein uS3
mol_id molecule chains synonym
3 30S ribosomal protein S4 d Small ribosomal subunit protein uS4
mol_id molecule chains synonym
4 30S ribosomal protein S5 e Small ribosomal subunit protein uS5
mol_id molecule chains
5 30S ribosomal protein S6, fully modified isoform f
mol_id molecule chains synonym
6 30S ribosomal protein S7 g Small ribosomal subunit protein uS7
mol_id molecule chains synonym
7 30S ribosomal protein S8 h Small ribosomal subunit protein uS8
mol_id molecule chains synonym
8 30S ribosomal protein S9 i Small ribosomal subunit protein uS9
mol_id molecule chains synonym
9 30S ribosomal protein S10 j Small ribosomal subunit protein uS10,Transcription termination/antitermination protein NusE
mol_id molecule chains synonym
10 30S ribosomal protein S11 k Small ribosomal subunit protein uS11
mol_id molecule chains synonym
11 30S ribosomal protein S12 l Small ribosomal subunit protein uS12
mol_id molecule chains synonym
12 30S ribosomal protein S13 m Small ribosomal subunit protein uS13
mol_id molecule chains synonym
13 30S ribosomal protein S14 n Small ribosomal subunit protein uS14
mol_id molecule chains synonym
14 30S ribosomal protein S15 o Small ribosomal subunit protein uS15
mol_id molecule chains synonym
15 30S ribosomal protein S16 p Small ribosomal subunit protein bS16
mol_id molecule chains synonym
16 30S ribosomal protein S17 q Small ribosomal subunit protein uS17
mol_id molecule chains synonym
17 30S ribosomal protein S18 r Small ribosomal subunit protein bS18
mol_id molecule chains synonym
18 30S ribosomal protein S19 s Small ribosomal subunit protein uS19
mol_id molecule chains synonym
19 30S ribosomal protein S20 t Small ribosomal subunit protein bS20
mol_id molecule chains synonym
20 30S ribosomal protein S21 u Small ribosomal subunit protein bS21
mol_id molecule chains synonym
21 30S ribosomal protein S2 b Small ribosomal subunit protein uS2
mol_id molecule chains synonym
22 50S ribosomal protein L32 0 Large ribosomal subunit protein bL32
mol_id molecule chains synonym
23 50S ribosomal protein L33 1 Large ribosomal subunit protein bL33
mol_id molecule chains synonym
24 50S ribosomal protein L34 2 Large ribosomal subunit protein bL34
mol_id molecule chains synonym
25 50S ribosomal protein L35 3 Large ribosomal subunit protein bL35,Ribosomal protein A
mol_id molecule chains synonym
26 50S ribosomal protein L36 4 Large ribosomal subunit protein bL36-A,Ribosomal protein B
mol_id molecule chains synonym
27 Large ribosomal subunit protein uL1 5 50S ribosomal protein L1
mol_id molecule chains
28 23 ribosomal RNA A
mol_id molecule chains
29 5S ribosomal RNA B
mol_id molecule chains synonym
30 50S ribosomal protein L2 C Large ribosomal subunit protein uL2
mol_id molecule chains synonym
31 50S ribosomal protein L3 D Large ribosomal subunit protein uL3
mol_id molecule chains synonym
32 50S ribosomal protein L4 E Large ribosomal subunit protein uL4
mol_id molecule chains synonym
33 50S ribosomal protein L5 F Large ribosomal subunit protein uL5
mol_id molecule chains synonym
34 50S ribosomal protein L6 G Large ribosomal subunit protein uL6
mol_id molecule chains synonym
35 50S ribosomal protein L9 H Large ribosomal subunit protein bL9
mol_id molecule chains synonym
36 50S ribosomal protein L11 I Large ribosomal subunit protein uL11
mol_id molecule chains synonym
37 50S ribosomal protein L13 J Large ribosomal subunit protein uL13
mol_id molecule chains synonym
38 50S ribosomal protein L14 K Large ribosomal subunit protein uL14
mol_id molecule chains
39 50S ribosomal protein L15 L
mol_id molecule chains synonym
40 50S ribosomal protein L16 M Large ribosomal subunit protein uL16
mol_id molecule chains synonym
41 50S ribosomal protein L17 N Large ribosomal subunit protein bL17
mol_id molecule chains synonym
42 50S ribosomal protein L18 O Large ribosomal subunit protein uL18
mol_id molecule chains synonym
43 50S ribosomal protein L19 P Large ribosomal subunit protein bL19
mol_id molecule chains synonym
44 50S ribosomal protein L20 Q Large ribosomal subunit protein bL20
mol_id molecule chains synonym
45 50S ribosomal protein L21 R Large ribosomal subunit protein bL21
mol_id molecule chains synonym
46 50S ribosomal protein L22 S Large ribosomal subunit protein uL22
mol_id molecule chains synonym
47 50S ribosomal protein L23 T Large ribosomal subunit protein uL23
mol_id molecule chains synonym
48 50S ribosomal protein L24 U Large ribosomal subunit protein uL24
mol_id molecule chains synonym
49 50S ribosomal protein L25 V Large ribosomal subunit protein bL25
mol_id molecule chains synonym
50 50S ribosomal protein L27 W Large ribosomal subunit protein bL27
mol_id molecule chains synonym
51 50S ribosomal protein L28 X Large ribosomal subunit protein bL28
mol_id molecule chains synonym
52 50S ribosomal protein L29 Y Large ribosomal subunit protein uL29
mol_id molecule chains synonym
53 50S ribosomal protein L30 Z Large ribosomal subunit protein uL30
mol_id molecule chains
54 tRNA 6,9
mol_id molecule chains
55 mRNA 7
mol_id molecule chains
56 tRNA 8
mol_id molecule chains synonym
57 Elongation factor 4 x EF-4,Ribosomal back-translocase LepA
ec: 3.6.5.-
Source :
mol_id organism_scientific
1 Escherichia coli K-12  (taxid:83333)
mol_id organism_scientific expression_system
2 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsC
mol_id organism_scientific expression_system
3 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsD
mol_id organism_scientific expression_system
4 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsE
mol_id organism_scientific expression_system
5 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsF
mol_id organism_scientific expression_system
6 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsG
mol_id organism_scientific expression_system
7 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsH
mol_id organism_scientific expression_system
8 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsI
mol_id organism_scientific expression_system
9 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsJ
mol_id organism_scientific expression_system
10 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsK
mol_id organism_scientific expression_system
11 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: k12
gene: rpsL
mol_id organism_scientific expression_system
12 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsM
mol_id organism_scientific expression_system
13 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsN
mol_id organism_scientific expression_system
14 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsO
mol_id organism_scientific expression_system
15 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsP
mol_id organism_scientific expression_system
16 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsQ
mol_id organism_scientific expression_system
17 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: k12
gene: rpsR
mol_id organism_scientific expression_system
18 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsS
mol_id organism_scientific expression_system
19 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsT
mol_id organism_scientific expression_system
20 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: k12
gene: rpsU
mol_id organism_scientific expression_system
21 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpsB
mol_id organism_scientific expression_system
22 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmF
mol_id organism_scientific expression_system
23 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmG
mol_id organism_scientific expression_system
24 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmH
mol_id organism_scientific expression_system
25 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmI
mol_id organism_scientific expression_system
26 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmJ
mol_id organism_scientific expression_system
27 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplA
mol_id organism_scientific
28 Escherichia coli K-12  (taxid:83333)
mol_id organism_scientific
29 Escherichia coli K-12  (taxid:83333)
mol_id organism_scientific expression_system
30 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplB
mol_id organism_scientific expression_system
31 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplC
mol_id organism_scientific expression_system
32 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: k12
gene: rplD
mol_id organism_scientific expression_system
33 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplE
mol_id organism_scientific expression_system
34 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplF
mol_id organism_scientific expression_system
35 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplI
mol_id organism_scientific expression_system
36 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplK
mol_id organism_scientific expression_system
37 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplM
mol_id organism_scientific expression_system
38 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplN
mol_id organism_scientific expression_system
39 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplO
mol_id organism_scientific expression_system
40 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplP
mol_id organism_scientific expression_system
41 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplQ
mol_id organism_scientific expression_system
42 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplR
mol_id organism_scientific expression_system
43 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplS
mol_id organism_scientific expression_system
44 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplT
mol_id organism_scientific expression_system
45 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplU
mol_id organism_scientific expression_system
46 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplV
mol_id organism_scientific expression_system
47 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplW
mol_id organism_scientific expression_system
48 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplX
mol_id organism_scientific expression_system
49 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rplY
mol_id organism_scientific expression_system
50 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmA
mol_id organism_scientific expression_system
51 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmB
mol_id organism_scientific expression_system
52 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmC
mol_id organism_scientific expression_system
53 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: rpmD
mol_id organism_scientific
54 Synthetic construct  (taxid:32630)
synthetic: yes
mol_id organism_scientific
55 Synthetic construct  (taxid:32630)
synthetic: yes
mol_id organism_scientific
56 Synthetic construct  (taxid:32630)
synthetic: yes
mol_id organism_scientific expression_system
57 Escherichia coli K-12  (taxid:83333) Escherichia coli  (taxid:562)
strain: K12
gene: lepA
Authors : Zhang, D., Yan, K., Liu, G., Song, G., Luo, J., Shi, Y., Cheng, E., Wu, S., Jiang, T., Low, J., Gao, N., Qin, Y.
Keywords : ribosome elongation, GTPase EF4, tRNA back-translocation, P-loop, RIBOSOME
Exp. method : ELECTRON MICROSCOPY ( 3.200 Å )
Citation :

EF4 disengages the peptidyl-tRNA CCA end and facilitates back-translocation on the 70S ribosome

Zhang, D.,Yan, K.,Liu, G.  et al.
(2016)  Nat. Struct. Mol. Biol.  23 : 125 - 131

PubMed: 26809121
DOI: 10.1038/nsmb.3160

Reaction

Chain : c
UniProt : P0A7V3 (RS3_ECOLI)
Reaction : -
Chain : d
UniProt : P0A7V8 (RS4_ECOLI)
Reaction : -
Chain : e
UniProt : P0A7W1 (RS5_ECOLI)
Reaction : -
Chain : f
UniProt : P02358 (RS6_ECOLI)
Reaction : -
Chain : g
UniProt : P02359 (RS7_ECOLI)
Reaction : -
Chain : h
UniProt : P0A7W7 (RS8_ECOLI)
Reaction : -
Chain : i
UniProt : P0A7X3 (RS9_ECOLI)
Reaction : -
Chain : j
UniProt : P0A7R5 (RS10_ECOLI)
Reaction : -
Chain : k
UniProt : P0A7R9 (RS11_ECOLI)
Reaction : -
Chain : l
UniProt : P0A7S3 (RS12_ECOLI)
Reaction : -
Chain : m
UniProt : P0A7S9 (RS13_ECOLI)
Reaction : -
Chain : n
UniProt : P0AG59 (RS14_ECOLI)
Reaction : -
Chain : o
UniProt : P0ADZ4 (RS15_ECOLI)
Reaction : -
Chain : p
UniProt : P0A7T3 (RS16_ECOLI)
Reaction : -
Chain : q
UniProt : P0AG63 (RS17_ECOLI)
Reaction : -
Chain : r
UniProt : P0A7T7 (RS18_ECOLI)
Reaction : -
Chain : s
UniProt : P0A7U3 (RS19_ECOLI)
Reaction : -
Chain : t
UniProt : P0A7U7 (RS20_ECOLI)
Reaction : -
Chain : u
UniProt : P68679 (RS21_ECOLI)
Reaction : -
Chain : b
UniProt : P0A7V0 (RS2_ECOLI)
Reaction : -
Chain : 0
UniProt : P0A7N4 (RL32_ECOLI)
Reaction : -
Chain : 1
UniProt : P0A7N9 (RL33_ECOLI)
Reaction : -
Chain : 2
UniProt : P0A7P5 (RL34_ECOLI)
Reaction : -
Chain : 3
UniProt : P0A7Q1 (RL35_ECOLI)
Reaction : -
Chain : 4
UniProt : P0A7Q6 (RL36_ECOLI)
Reaction : -
Chain : 5
UniProt : P0A7L0 (RL1_ECOLI)
Reaction : -
Chain : C
UniProt : P60422 (RL2_ECOLI)
Reaction : -
Chain : D
UniProt : P60438 (RL3_ECOLI)
Reaction : -
Chain : E
UniProt : P60723 (RL4_ECOLI)
Reaction : -
Chain : F
UniProt : P62399 (RL5_ECOLI)
Reaction : -
Chain : G
UniProt : P0AG55 (RL6_ECOLI)
Reaction : -
Chain : H
UniProt : P0A7R1 (RL9_ECOLI)
Reaction : -
Chain : I
UniProt : P0A7J7 (RL11_ECOLI)
Reaction : -
Chain : J
UniProt : P0AA10 (RL13_ECOLI)
Reaction : -
Chain : K
UniProt : P0ADY3 (RL14_ECOLI)
Reaction : -
Chain : L
UniProt : P02413 (RL15_ECOLI)
Reaction : -
Chain : M
UniProt : P0ADY7 (RL16_ECOLI)
Reaction : -
Chain : N
UniProt : P0AG44 (RL17_ECOLI)
Reaction : -
Chain : O
UniProt : P0C018 (RL18_ECOLI)
Reaction : -
Chain : P
UniProt : P0A7K6 (RL19_ECOLI)
Reaction : -
Chain : Q
UniProt : P0A7L3 (RL20_ECOLI)
Reaction : -
Chain : R
UniProt : P0AG48 (RL21_ECOLI)
Reaction : -
Chain : S
UniProt : P61175 (RL22_ECOLI)
Reaction : -
Chain : T
UniProt : P0ADZ0 (RL23_ECOLI)
Reaction : -
Chain : U
UniProt : P60624 (RL24_ECOLI)
Reaction : -
Chain : V
UniProt : P68919 (RL25_ECOLI)
Reaction : -
Chain : W
UniProt : P0A7L8 (RL27_ECOLI)
Reaction : -
Chain : X
UniProt : P0A7M2 (RL28_ECOLI)
Reaction : -
Chain : Y
UniProt : P0A7M6 (RL29_ECOLI)
Reaction : -
Chain : Z
UniProt : P0AG51 (RL30_ECOLI)
Reaction : -
Chain : x
UniProt : P60785 (LEPA_ECOLI)
Reaction: EC: Evidence:
Physiological Direction:
GTP + H2O = GDP + phosphate + H(+) 3.6.5.n1 HAMAP-Rule:MF_00071, PubMed:20045415
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