Het-PDB Navi2 (PDB: 4V5F)

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Data format:

Color scheme of protein:

Ligands
Code	Name	Link
ZN	Zinc ion	PoSSuM
MG	Magnesium ion	PoSSuM
FUA	Fusidic acid	PoSSuM
GDP	Guanosine-5'-diphosphate	PoSSuM

Non-standard Residues
Code	Name	Show
5MU	5-methyluridine 5'-monophosphate

Glycosylation
Code	Name	Emphasize

Modification
Code	Name	Show

Download interaction data: 4V5F

Code :

4V5F PDBj RCSB PDB PDBe

Header :

RIBOSOME

Title :

The structure of the ribosome with elongation factor G trapped in the post-translocational state

Release Data :

2014-07-09

Compound :

mol_id	molecule	chains
1	16S ribosomal RNA	AA,CA
	other_details: CHAIN A (16S RNA) HAS E.COLI NUMBERING, BASED ON A STRUCTURAL ALIGNMENT WITH THE CORRESPONDING E.COLI STRUCTURE IN 2AVY.

mol_id	molecule	chains
2	30S RIBOSOMAL PROTEIN S2	AB,CB

mol_id	molecule	chains
3	30S RIBOSOMAL PROTEIN S3	AC,CC

mol_id	molecule	chains
4	30S RIBOSOMAL PROTEIN S4	AD,CD

mol_id	molecule	chains
5	30S RIBOSOMAL PROTEIN S5	AE,CE

mol_id	molecule	chains	synonym
6	30S RIBOSOMAL PROTEIN S6	AF,CF	TS9

mol_id	molecule	chains
7	30S RIBOSOMAL PROTEIN S7	AG,CG

mol_id	molecule	chains
8	30S RIBOSOMAL PROTEIN S8	AH,CH

mol_id	molecule	chains
9	30S RIBOSOMAL PROTEIN S9	AI,CI

mol_id	molecule	chains
10	30S RIBOSOMAL PROTEIN S10	AJ,CJ

mol_id	molecule	chains
11	30S RIBOSOMAL PROTEIN S11	AK,CK

mol_id	molecule	chains
12	30S RIBOSOMAL PROTEIN S12	AL,CL

mol_id	molecule	chains
13	30S RIBOSOMAL PROTEIN S13	AM,CM

mol_id	molecule	chains
14	30S RIBOSOMAL PROTEIN S14 TYPE Z	AN,CN

mol_id	molecule	chains
15	30S RIBOSOMAL PROTEIN S15	AO,CO

mol_id	molecule	chains
16	30S RIBOSOMAL PROTEIN S16	AP,CP

mol_id	molecule	chains
17	30S RIBOSOMAL PROTEIN S17	AQ,CQ

mol_id	molecule	chains
18	30S RIBOSOMAL PROTEIN S18	AR,CR

mol_id	molecule	chains
19	30S RIBOSOMAL PROTEIN S19	AS,CS

mol_id	molecule	chains
20	30S RIBOSOMAL PROTEIN S20	AT,CT

mol_id	molecule	chains	synonym
21	30S RIBOSOMAL PROTEIN THX	AU,CU	S31

mol_id	molecule	chains
22	E-SITE TRNA FMET OR P-SITE TRNA FMET (UNMODIFIED BASES EXCEPT FOR THYMINE 54)	AV,AW,CV,CW

mol_id	molecule	chains
23	MRNA	AX,CX

mol_id	molecule	chains	synonym
24	ELONGATION FACTOR G	AY,CY	EF-G

mol_id	molecule	chains
25	50S RIBOSOMAL PROTEIN L27	B0,D0

mol_id	molecule	chains
26	50S RIBOSOMAL PROTEIN L28	B1,D1

mol_id	molecule	chains	synonym
27	50S RIBOSOMAL PROTEIN L29	B2,D2	TL5

mol_id	molecule	chains
28	50S RIBOSOMAL PROTEIN L30	B3,D3

mol_id	molecule	chains
29	50S RIBOSOMAL PROTEIN L31	B4,D4

mol_id	molecule	chains
30	50S RIBOSOMAL PROTEIN L32	B5,D5

mol_id	molecule	chains
31	50S RIBOSOMAL PROTEIN L33	B6,D6

mol_id	molecule	chains
32	50S RIBOSOMAL PROTEIN L34	B7,D7

mol_id	molecule	chains
33	50S RIBOSOMAL PROTEIN L35	B8,D8

mol_id	molecule	chains	synonym
34	50S RIBOSOMAL PROTEIN L36	B9,D9	RIBOSOMAL PROTEIN B

mol_id	molecule	chains
35	23S RIBOSOMAL RNA	BA,DA
	other_details: CHAIN A (23S RNA) HAS E.COLI RESIDUE NUMBERING, BASED ON A STRUCTURAL ALIGNMENT WITH THE CORRESPONDING E. COLI STRUCTURE IN 2AW4

mol_id	molecule	chains
36	5S RIBOSOMAL RNA	BB,DB

mol_id	molecule	chains
37	50S RIBOSOMAL PROTEIN L1	BC,DC

mol_id	molecule	chains
38	50S RIBOSOMAL PROTEIN L2	BD,DD

mol_id	molecule	chains
39	50S RIBOSOMAL PROTEIN L3	BE,DE

mol_id	molecule	chains	synonym
40	50S RIBOSOMAL PROTEIN L4	BF,DF	L1E

mol_id	molecule	chains
41	50S RIBOSOMAL PROTEIN L5	BG,DG

mol_id	molecule	chains
42	50S RIBOSOMAL PROTEIN L6	BH,DH

mol_id	molecule	chains
43	50S RIBOSOMAL PROTEIN L10	BJ,DJ
	other_details: RESIDUES 4-133 ARE BUILT AS POLY-ALA

mol_id	molecule	chains
44	50S RIBOSOMAL PROTEIN L11	BK,DK

mol_id	molecule	chains
45	50S RIBOSOMAL PROTEIN L12	BL,BM,Bl,Bm,DL,DM,Dl,Dm

mol_id	molecule	chains
46	50S RIBOSOMAL PROTEIN L13	BN,DN

mol_id	molecule	chains
47	50S RIBOSOMAL PROTEIN L14	BO,DO

mol_id	molecule	chains
48	50S RIBOSOMAL PROTEIN L15	BP,DP

mol_id	molecule	chains
49	50S RIBOSOMAL PROTEIN L16	BQ,DQ

mol_id	molecule	chains
50	50S RIBOSOMAL PROTEIN L17	BR,DR

mol_id	molecule	chains	synonym
51	50S RIBOSOMAL PROTEIN L18	BS,DS	TL24

mol_id	molecule	chains
52	50S RIBOSOMAL PROTEIN L19	BT,DT

mol_id	molecule	chains
53	50S RIBOSOMAL PROTEIN L20	BU,DU

mol_id	molecule	chains
54	50S RIBOSOMAL PROTEIN L21	BV,DV

mol_id	molecule	chains
55	50S RIBOSOMAL PROTEIN L22	BW,DW

mol_id	molecule	chains
56	50S RIBOSOMAL PROTEIN L23	BX,DX

mol_id	molecule	chains
57	50S RIBOSOMAL PROTEIN L24	BY,DY

mol_id	molecule	chains	synonym
58	50S RIBOSOMAL PROTEIN L25	BZ,DZ	TL5

Source :

mol_id	organism_scientific
1	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
2	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
3	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
4	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
5	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
6	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
7	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
8	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
9	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
10	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
11	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
12	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
13	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
14	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
15	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
16	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
17	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
18	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
19	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
20	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
21	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
22	ESCHERICHIA COLI (taxid:83333)
	strain: K12

mol_id	organism_scientific
23	Synthetic construct (taxid:32630)
	synthetic: yes

mol_id	organism_scientific
24	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
25	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
26	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
27	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
28	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
29	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
30	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
31	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
32	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
33	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
34	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
35	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
36	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
37	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
38	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
39	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
40	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
41	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
42	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
43	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
44	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
45	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
46	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
47	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
48	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
49	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
50	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
51	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
52	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
53	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
54	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
55	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
56	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
57	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

mol_id	organism_scientific
58	THERMUS THERMOPHILUS (taxid:300852)
	strain: HB8 - MRC - MSAW1 atcc: 27634

Authors :

Gao, Y.-G., Selmer, M., Dunham, C.M., Weixlbaumer, A., Kelley, A.C., Ramakrishnan, V.

Keywords :

RIBOSOME, ZINC-FINGER, RNA-BINDING, TRANSLATION, RRNA-BINDING, PROTEIN BIOSYNTHESIS, ELONGATION FACTOR, RIBOSOMAL PROTEIN, TRNA-BINDING, TRANSLOCATION, METAL-BINDING, NUCLEOTIDE-BINDING, ELONGATION FACTOR G, RIBONUCLEOPROTEIN, PROTEIN SYNTHESIS

Exp. method :

X-RAY DIFFRACTION ( 3.6 Å )

Citation :

The structure of the ribosome with elongation factor G trapped in the posttranslocational state.

Gao, Y.G.,Selmer, M.,Dunham, C.M. et al.
(2009) Science 326 : 694 - 699

PubMed: 19833919
DOI: 10.1126/science.1179709

Chain :	AB, CB
UniProt :	P80371 (RS2_THET8)
Reaction :	-

Chain :	AC, CC
UniProt :	P80372 (RS3_THET8)
Reaction :	-

Chain :	AD, CD
UniProt :	P80373 (RS4_THET8)
Reaction :	-

Chain :	AE, CE
UniProt :	Q5SHQ5 (RS5_THET8)
Reaction :	-

Chain :	AF, CF
UniProt :	Q5SLP8 (RS6_THET8)
Reaction :	-

Chain :	AG, CG
UniProt :	P17291 (RS7_THET8)
Reaction :	-

Chain :	AH, CH
UniProt :	Q5SHQ2 (RS8_THET8)
Reaction :	-

Chain :	AI, CI
UniProt :	P80374 (RS9_THET8)
Reaction :	-

Chain :	AJ, CJ
UniProt :	Q5SHN7 (RS10_THET8)
Reaction :	-

Chain :	AK, CK
UniProt :	P80376 (RS11_THET8)
Reaction :	-

Chain :	AL, CL
UniProt :	Q5SHN3 (RS12_THET8)
Reaction :	-

Chain :	AM, CM
UniProt :	P80377 (RS13_THET8)
Reaction :	-

Chain :	AN, CN
UniProt :	Q5SHQ1 (RS14Z_THET8)
Reaction :	-

Chain :	AO, CO
UniProt :	Q5SJ76 (RS15_THET8)
Reaction :	-

Chain :	AP, CP
UniProt :	Q5SJH3 (RS16_THET8)
Reaction :	-

Chain :	AQ, CQ
UniProt :	Q5SHP7 (RS17_THET8)
Reaction :	-

Chain :	AR, CR
UniProt :	Q5SLQ0 (RS18_THET8)
Reaction :	-

Chain :	AS, CS
UniProt :	Q5SHP2 (RS19_THET8)
Reaction :	-

Chain :	AT, CT
UniProt :	P80380 (RS20_THET8)
Reaction :	-

Chain :	AU, CU
UniProt :	Q5SIH3 (RSHX_THET8)
Reaction :	-

Chain :	AY, CY
UniProt :	Q5SHN5 (EFG_THET8)
Reaction :	-

Chain :	B0, D0
UniProt :	P60493 (RL27_THET8)
Reaction :	-

Chain :	B1, D1
UniProt :	P60494 (RL28_THET8)
Reaction :	-

Chain :	B2, D2
UniProt :	Q5SHP6 (RL29_THET8)
Reaction :	-

Chain :	B3, D3
UniProt :	Q5SHQ6 (RL30_THET8)
Reaction :	-

Chain :	B4, D4
UniProt :	Q5SJE1 (RL31_THET8)
Reaction :	-

Chain :	B5, D5
UniProt :	P80339 (RL32_THET8)
Reaction :	-

Chain :	B6, D6
UniProt :	P35871 (RL33_THET8)
Reaction :	-

Chain :	B7, D7
UniProt :	P80340 (RL34_THET8)
Reaction :	-

Chain :	B8, D8
UniProt :	Q5SKU1 (RL35_THET8)
Reaction :	-

Chain :	B9, D9
UniProt :	Q5SHR2 (RL36_THET8)
Reaction :	-

Chain :	BC, DC
UniProt :	Q5SLP7 (RL1_THET8)
Reaction :	-

Chain :	BD, DD
UniProt :	P60405 (RL2_THET8)
Reaction :	-

Chain :	BE, DE
UniProt :	Q5SHN8 (RL3_THET8)
Reaction :	-

Chain :	BF, DF
UniProt :	Q5SHN9 (RL4_THET8)
Reaction :	-

Chain :	BG, DG
UniProt :	Q5SHQ0 (RL5_THET8)
Reaction :	-

Chain :	BH, DH
UniProt :	Q5SHQ3 (RL6_THET8)
Reaction :	-

Chain :	BK, DK
UniProt :	Q5SLP6 (RL11_THET8)
Reaction :	-

Chain :	BN, DN
UniProt :	P60488 (RL13_THET8)
Reaction :	-

Chain :	BO, DO
UniProt :	Q5SHP8 (RL14_THET8)
Reaction :	-

Chain :	BP, DP
UniProt :	Q5SHQ7 (RL15_THET8)
Reaction :	-

Chain :	BQ, DQ
UniProt :	P60489 (RL16_THET8)
Reaction :	-

Chain :	BR, DR
UniProt :	Q9Z9H5 (RL17_THET8)
Reaction :	-

Chain :	BS, DS
UniProt :	Q5SHQ4 (RL18_THET8)
Reaction :	-

Chain :	BT, DT
UniProt :	P60490 (RL19_THET8)
Reaction :	-

Chain :	BU, DU
UniProt :	P60491 (RL20_THET8)
Reaction :	-

Chain :	BV, DV
UniProt :	P60492 (RL21_THET8)
Reaction :	-

Chain :	BW, DW
UniProt :	Q5SHP3 (RL22_THET8)
Reaction :	-

Chain :	BX, DX
UniProt :	Q5SHP0 (RL23_THET8)
Reaction :	-

Chain :	BY, DY
UniProt :	Q5SHP9 (RL24_THET8)
Reaction :	-

Chain :	BZ, DZ
UniProt :	Q5SHZ1 (RL25_THET8)
Reaction :	-

PDB ID: 4V5F

Hetero Atom Contents

Structure summary

Reaction