Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

8VFT

Translating 80S rabbit ribosome stalled by emetine with eEF2

This is a non-PDB format compatible entry.

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	uL2	polymer	257	28088.9	1	UniProt (G1TT27) Pfam (PF00181) Pfam (PF03947)	Oryctolagus cuniculus (rabbit)
2	B (B)	uL3	polymer	403	46108.0	1	UniProt (G1TL06) Pfam (PF00297)	Oryctolagus cuniculus (rabbit)
3	C (C)	uL4	polymer	425	47727.6	1	UniProt (G1SVW5) Pfam (PF00573) Pfam (PF14374)	Oryctolagus cuniculus (rabbit)
4	D (D)	uL18	polymer	297	34481.8	1	UniProt (G1SYJ6) UniProt (by SIFTS) (P19949)	Oryctolagus cuniculus (rabbit)
5	E (E)	eL6	polymer	291	33028.3	1	UniProt (G1SKF7) Pfam (PF03868) Pfam (PF01159)	Oryctolagus cuniculus (rabbit)
6	F (F)	uL30	polymer	247	29201.8	1	UniProt (G1TUB1) UniProt (by SIFTS) (A0AAG1W3S3)	Oryctolagus cuniculus (rabbit)
7	G (G)	eL8	polymer	319	36221.5	1	UniProt (G1STW0) Pfam (PF01248)	Oryctolagus cuniculus (rabbit)
8	H (H)	uL6	polymer	192	21871.4	1	UniProt (G1SWI6) Pfam (PF00347)	Oryctolagus cuniculus (rabbit)
9	I (I)	uL16	polymer	214	24643.1	1	UniProt (B7NZQ2) Pfam (PF00252)	Oryctolagus cuniculus (rabbit)
10	J (J)	uL5	polymer	178	20288.5	1	UniProt (G1TUB8) Pfam (PF00281) Pfam (PF00673)	Oryctolagus cuniculus (rabbit)
11	K (L)	eL13	polymer	211	24331.7	1	UniProt (G1TPV0) Pfam (PF01294) UniProt (by SIFTS) (G1TKB3)	Oryctolagus cuniculus (rabbit)
12	L (M)	eL14	polymer	218	23870.5	1	UniProt (G1SZ12) Pfam (PF01929)	Oryctolagus cuniculus (rabbit)
13	M (N)	eL15	polymer	204	24207.3	1	UniProt (G1T0C1) Pfam (PF00827)	Oryctolagus cuniculus (rabbit)
14	N (O)	uL13	polymer	203	23533.3	1	UniProt (by SIFTS) (G1TVS8)	Oryctolagus cuniculus (rabbit)
15	O (P)	uL22	polymer	184	21444.2	1	UniProt (G1TVT6) Pfam (PF00237) UniProt (by SIFTS) (G1SCJ6)	Oryctolagus cuniculus (rabbit)
16	P (Q)	eL18	polymer	188	21699.7	1	UniProt (G1TFE0) Pfam (PF17135)	Oryctolagus cuniculus (rabbit)
17	Q (R)	eL19	polymer	196	23535.3	1	UniProt (G1TJR3) Pfam (PF01280)	Oryctolagus cuniculus (rabbit)
18	R (S)	eL20	polymer	176	20827.6	1	UniProt (G1TTY7) Pfam (PF01775)	Oryctolagus cuniculus (rabbit)
19	S (T)	eL21	polymer	160	18610.0	1	UniProt (G1SHQ2) Pfam (PF01157)	Oryctolagus cuniculus (rabbit)
20	T (U)	eL22	polymer	128	14813.0	1	UniProt (G1TSG1) Pfam (PF01776)	Oryctolagus cuniculus (rabbit)
21	U (V)	uL14	polymer	140	14892.5	1	UniProt (G1T6D1) Pfam (PF00238)	Oryctolagus cuniculus (rabbit)
22	V (W)	eL24	polymer	157	17825.1	1	UniProt (G1SE28) Pfam (PF01246)	Oryctolagus cuniculus (rabbit)
23	W (X)	uL23	polymer	156	17768.2	1	UniProt (G1SE76) Pfam (PF03939) Pfam (PF00276)	Oryctolagus cuniculus (rabbit)
24	X (Y)	uL24	polymer	145	17303.4	1	UniProt (G1SQH0) Pfam (PF16906) Pfam (PF00467)	Oryctolagus cuniculus (rabbit)
25	Y (Z)	eL27	polymer	136	15835.8	1	UniProt (G1TXF6) Pfam (PF00467) Pfam (PF01777)	Oryctolagus cuniculus (rabbit)
26	Z (a)	uL15	polymer	148	16620.6	1	UniProt (G1SNY0) Pfam (PF00828)	Oryctolagus cuniculus (rabbit)
27	AA (b)	eL29	polymer	245	26708.7	1	UniProt (G1SGR6) Pfam (PF01779)	Oryctolagus cuniculus (rabbit)
28	BA (c)	eL30	polymer	115	12807.1	1	UniProt (G1TDL2) Pfam (PF01248)	Oryctolagus cuniculus (rabbit)
29	CA (d)	eL31	polymer	125	14494.9	1	UniProt (G1SHG0) Pfam (PF01198)	Oryctolagus cuniculus (rabbit)
30	DA (e)	eL32	polymer	135	15898.9	1	UniProt (G1U437) Pfam (PF01655) UniProt (by SIFTS) (G1TUN8)	Oryctolagus cuniculus (rabbit)
31	EA (f)	eL33	polymer	110	12580.8	1	UniProt (G1SF08) Pfam (PF01247)	Oryctolagus cuniculus (rabbit)
32	FA (g)	eL34	polymer	117	13326.1	1	UniProt (G1TXG5) Pfam (PF01199)	Oryctolagus cuniculus (rabbit)
33	GA (h)	uL29	polymer	123	14566.6	1	UniProt (G1SIT5) Pfam (PF00831)	Oryctolagus cuniculus (rabbit)
34	HA (i)	eL36	polymer	105	12263.8	1	UniProt (G1TTQ5) Pfam (PF01158)	Oryctolagus cuniculus (rabbit)
35	IA (j)	eL37	polymer	97	11111.0	1	UniProt (U3KPD5) Pfam (PF01907)	Oryctolagus cuniculus (rabbit)
36	JA (k)	eL38	polymer	70	8238.9	1	UniProt (G1U001) Pfam (PF01781)	Oryctolagus cuniculus (rabbit)
37	KA (l)	eL39	polymer	51	6455.8	1	UniProt (G1TTN1) Pfam (PF00832)	Oryctolagus cuniculus (rabbit)
38	LA (m)	eL40	polymer	93	10865.9	1	UniProt (A0A2K5PSA0) Pfam (PF00240) Pfam (PF01020)	Oryctolagus cuniculus (rabbit)	Ubiquitin-60S ribosomal protein L40
39	MA (n)	eL41	polymer	25	3473.5	1	UniProt (A0A087WNH4) Pfam (PF05162)	Oryctolagus cuniculus (rabbit)	60s ribosomal protein l41
40	NA (o)	eL42	polymer	106	12477.0	1	UniProt (G1U344) Pfam (PF00935) UniProt (by SIFTS) (G1T040)	Oryctolagus cuniculus (rabbit)
41	OA (p)	eL43	polymer	92	10299.4	1	UniProt (G1SY53) Pfam (PF01780)	Oryctolagus cuniculus (rabbit)
42	PA (r)	eL28	polymer	137	15783.6	1	UniProt (G1U7L1) Pfam (PF01778)	Oryctolagus cuniculus (rabbit)
43	QA (s)	uL10	polymer	318	34380.5	1	UniProt (G1SPK4) Pfam (PF00466) Pfam (PF17777) Pfam (PF00428)	Oryctolagus cuniculus (rabbit)
44	RA (t)	uL11	polymer	165	17847.6	1	UniProt (G1SMR7) Pfam (PF03946) Pfam (PF00298)	Oryctolagus cuniculus (rabbit)
45	SA (5)	28S rRNA	polymer	3543	1149054.1	1		Oryctolagus cuniculus (rabbit)
46	TA (7)	5S rRNA	polymer	120	38691.9	1	GenBank (X06789.1)	Oryctolagus cuniculus (rabbit)
47	UA (8)	5.8S rRNA	polymer	156	50157.7	1		Oryctolagus cuniculus (rabbit)
48	VA (v)	eEF2	polymer	858	95605.4	1	UniProt (P55823) Pfam (PF03764) Pfam (PF00679) Pfam (PF00009) Pfam (PF03144) Pfam (PF14492)	Oryctolagus cuniculus (rabbit)	EF-2
49	WA (9)	18S rRNA	polymer	1869	603376.8	1		Oryctolagus cuniculus (rabbit)
50	XA (AA)	uS2	polymer	295	32958.0	1	UniProt (G1TLT8) Pfam (PF00318) Pfam (PF16122)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein SA, 37 kDa laminin receptor precursor,37LRP,37/67 kDa laminin receptor,LRP/LR,67 kDa laminin receptor,67LR,Laminin receptor 1,LamR,Laminin-binding protein precursor p40,LBP/p40
51	YA (BB)	eS1	polymer	264	30002.1	1	UniProt (G1SS70) Pfam (PF01015)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S3a
52	ZA (CC)	uS5	polymer	293	31327.4	1		Oryctolagus cuniculus (rabbit)
53	AB (DD)	uS3	polymer	243	26715.3	1	UniProt (G1TNM3) UniProt (by SIFTS) (A0AAG1WUK3)	Oryctolagus cuniculus (rabbit)
54	BB (EE)	eS4	polymer	263	29654.9	1	UniProt (G1TK17) Pfam (PF08071) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) UniProt (by SIFTS) (G1TA47)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S4
55	CB (FF)	uS7	polymer	204	22913.5	1	UniProt (G1TFM5) Pfam (PF00177)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S5
56	DB (GG)	eS6	polymer	249	28751.9	1	UniProt (G1TM55) Pfam (PF01092) UniProt (by SIFTS) (A0A5K1UJS7)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S6
57	EB (HH)	eS7	polymer	194	22168.9	1	UniProt (G1SVB0)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S7
58	FB (II)	eS8	polymer	208	24263.4	1	UniProt (G1TJW1) Pfam (PF01201)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S8
59	GB (JJ)	uS4	polymer	194	22641.6	1	UniProt (B7NZS8) Pfam (PF00163) Pfam (PF01479)	Oryctolagus cuniculus (rabbit)	Ribosomal protein S9
60	HB (KK)	eS10	polymer	165	18933.8	1	UniProt (G1TPV3) Pfam (PF03501)	Oryctolagus cuniculus (rabbit)
61	IB (LL)	uS17	polymer	158	18468.8	1	UniProt (G1TRM4) Pfam (PF16205) Pfam (PF00366)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S11
62	JB (MM)	eS12	polymer	132	14539.0	1	UniProt (G1SFR8) Pfam (PF01248)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S12
63	KB (NN)	uS15	polymer	151	17259.4	1	UniProt (G1SP51) Pfam (PF08069) Pfam (PF00312)	Oryctolagus cuniculus (rabbit)	Ribosomal protein S13
64	LB (OO)	uS11	polymer	168	18134.0	1	UniProt (G1U472) UniProt (by SIFTS) (A0AAA9WYR1)	Oryctolagus cuniculus (rabbit)
65	MB (PP)	uS19	polymer	145	17049.2	1	UniProt (G1U0Q2) Pfam (PF00203)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S15
66	NB (QQ)	uS9	polymer	146	16477.4	1	UniProt (G1SGX4) Pfam (PF00380)	Oryctolagus cuniculus (rabbit)
67	OB (RR)	eS17	polymer	135	15552.1	1	UniProt (G1TU13) Pfam (PF00833)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S17
68	PB (SS)	uS13	polymer	152	17759.8	1	UniProt (G1TPG3) Pfam (PF00416)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S18
69	QB (TT)	eS19	polymer	145	16106.6	1	UniProt (G1TN62) Pfam (PF01090)	Oryctolagus cuniculus (rabbit)
70	RB (UU)	uS10	polymer	119	13398.8	1	UniProt (G1SIZ2) Pfam (PF00338)	Oryctolagus cuniculus (rabbit)
71	SB (VV)	eS21	polymer	83	9124.4	1	UniProt (G1TM82) Pfam (PF01249)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S21
72	TB (WW)	uS8	polymer	130	14865.6	1	UniProt (G1TG89) Pfam (PF00410)	Oryctolagus cuniculus (rabbit)	40S Ribosomal protein S15a
73	UB (XX)	uS12	polymer	143	15844.7	1	UniProt (G1SZ47) Pfam (PF00164)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S23
74	VB (YY)	eS24	polymer	130	15107.9	1	UniProt (G1T3D8) Pfam (PF01282) UniProt (by SIFTS) (A0A5F9CBF4)	Oryctolagus cuniculus (rabbit)
75	WB (ZZ)	eS25	polymer	125	13776.2	1	UniProt (G1TDB3) Pfam (PF03297)	Oryctolagus cuniculus (rabbit)
76	XB (aa)	eS26	polymer	115	13047.5	1	UniProt (G1TFE8) Pfam (PF01283)	Oryctolagus cuniculus (rabbit)
77	YB (bb)	eS27	polymer	84	9480.2	1	UniProt (G1TZ76) Pfam (PF01667)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S27
78	ZB (cc)	eS28	polymer	69	7855.1	1	UniProt (G1TIB4) Pfam (PF01200)	Oryctolagus cuniculus (rabbit)	40S Ribosomal protein S28
79	AC (dd)	uS14	polymer	56	6690.8	1	UniProt (G1U7M4) Pfam (PF00253)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S29
80	BC (ee)	eS30	polymer	133	14498.9	1	UniProt (G1T8A2) Pfam (PF00240) Pfam (PF04758)	Oryctolagus cuniculus (rabbit)	40S ribosomal protein S30
81	CC (ff)	eS31	polymer	156	18004.0	1	UniProt (G1SK22) Pfam (PF00240) Pfam (PF01599)	Oryctolagus cuniculus (rabbit)	Ribosomal protein S27a
82	DC (gg)	RACK1	polymer	317	35115.7	1	UniProt (G1SJB4) Pfam (PF00400)	Oryctolagus cuniculus (rabbit)
83	EC (3)	E-site tRNA	polymer	75	24102.3	1		Oryctolagus cuniculus (rabbit)
84	FC (w)	mRNA	polymer	6	1792.0	1		Oryctolagus cuniculus (rabbit)
85	GC (2)	P-site tRNA	polymer	76	24453.5	1		Oryctolagus cuniculus (rabbit)
86	AD, AE, AF, AG, AH... (5, 9, TT, aa, w...)	MAGNESIUM ION	non-polymer		24.3	276	Chemie (MG)
87	CN, DN, EN, QC, SC... (aa, dd, ff, g, j...)	ZINC ION	non-polymer		65.4	8	Chemie (ZN)
88	TK (v)	GUANOSINE-5'-DIPHOSPHATE	non-polymer		443.2	1	Chemie (GDP)
89	YM (9)	emetine	non-polymer		480.6	1	Chemie (34G)

Sequence modifications

C: 1 - 425 (UniProt: G1SVW5)

PDB	External Database	Details
Lys 378	-	insertion
Val 379	-	insertion
Lys 380	-	insertion
Lys 381	-	insertion
Pro 382	-	insertion
Arg 383	-	insertion
Ala 384	-	insertion
Val 385	-	insertion
Gly 386	-	insertion
Ile 387	-	insertion
Lys 388	-	insertion
Gln 389	-	insertion

F: 1 - 247 (UniProt: G1TUB1)

PDB	External Database	Details
Arg 61	Gly 61	conflict
Arg 93	Gly 93	conflict
Met 131	Val 131	conflict
Ile 153	Val 153	conflict

G: -52 - 266 (UniProt: G1STW0)

PDB	External Database	Details
Gly 191	Cys 244	conflict

L: 1 - 211 (UniProt: G1TPV0)

PDB	External Database	Details
Ile 46	-	insertion
Ala 47	-	insertion
Pro 48	-	insertion
Arg 49	-	insertion
Pro 50	-	insertion
Ala 51	-	insertion
Ala 52	-	insertion
Gly 53	-	insertion
Pro 54	-	insertion

Q: 1 - 188 (UniProt: G1TFE0)

PDB	External Database	Details
Asp 4	Asn 4	conflict
Arg 14	Trp 14	conflict
Met 53	Leu 53	conflict
Arg 58	Trp 58	conflict
Arg 75	Gln 75	conflict
Ala 80	Pro 80	conflict
Val 86	Ile 86	conflict
Arg 104	His 104	conflict
Arg 110	Cys 110	conflict
Val 137	Gly 137	conflict
Gly 157	Arg 157	conflict
Arg 181	Trp 181	conflict

R: 1 - 196 (UniProt: G1TJR3)

PDB	External Database	Details
Arg 38	Cys 38	conflict
Arg 64	Gln 64	conflict
Thr 94	Lys 94	conflict

S: 1 - 175 (UniProt: G1TTY7)

PDB	External Database	Details
Met 1	Thr 1	conflict
Pro 18	-	insertion
Thr 19	-	insertion
Pro 20	Ser 18	conflict
Cys 22	Ser 20	conflict
Arg 23	Pro 21	conflict
Thr 24	Ala 22	conflict
Ser 49	Leu 47	conflict
Gln 50	Glu 48	conflict
Arg 95	His 93	conflict
Thr 101	Ile 99	conflict
Thr 102	Met 100	conflict
Gly 104	Ser 102	conflict
Ile 126	Val 124	conflict
Ile 132	Met 130	conflict
Ser 135	Ala 133	conflict
Lys 136	Arg 134	conflict
Arg 138	Pro 136	conflict
Lys 149	Arg 147	conflict
Lys 151	Arg 149	conflict
Thr 168	Tyr 166	conflict
Thr 169	Ala 167	conflict
Phe 176	-	insertion

U: 1 - 128 (UniProt: G1TSG1)

PDB	External Database	Details
Leu 18	Val 18	conflict
Gly 32	Arg 32	conflict
Ala 36	Glu 36	conflict
Phe 39	Ser 39	conflict
Gly 54	Arg 54	conflict
Val 60	Ala 60	conflict
Ser 62	Thr 62	conflict
Leu 63	Ile 63	conflict
Arg 97	His 97	conflict
Thr 106	Ser 106	conflict
Glu 126	Asp 126	conflict

k: 1 - 70 (UniProt: G1U001)

PDB	External Database	Details
Lys 24	Asn 24	conflict

7: 1 - 120 (GenBank: X06789.1)

PDB	External Database	Details
U 2	N 2	conflict
C 36	N 36	conflict
U 102	N 102	conflict
U 112	N 112	conflict
U 114	N 114	conflict
U 119	C 119	conflict
U 120	N 120	conflict

v: 1 - 858 (UniProt: P55823)

PDB	External Database	Details
Gly 847	-	insertion

AA: 1 - 295 (UniProt: G1TLT8)

PDB	External Database	Details
Thr 114	Ala 114	conflict

EE: 1 - 263 (UniProt: G1TK17)

PDB	External Database	Details
Gly 25	Ser 25	conflict
Arg 51	Lys 51	conflict
Thr 78	Ala 78	conflict
Val 156	Met 156	conflict

II: 1 - 208 (UniProt: G1TJW1)

PDB	External Database	Details
Arg 47	Gly 47	conflict

TT: 1 - 145 (UniProt: G1TN62)

PDB	External Database	Details
Gly 119	Trp 119	conflict

VV: 1 - 83 (UniProt: G1TM82)

PDB	External Database	Details
Asn 3	Ser 3	conflict
Asp 4	Asn 4	conflict
Gln 33	Pro 33	conflict
Phe 50	Ser 50	conflict
Ala 75	Ser 75	conflict
Asp 76	His 76	conflict
Lys 81	Gln 81	conflict

aa: 1 - 115 (UniProt: G1TFE8)

PDB	External Database	Details
Arg 28	Cys 28	conflict
Ala 56	Val 56	conflict
Arg 109	Pro 109	conflict

Sequence viewer

Contents of the asymmetric unit

Polymers	Number of chains	85
Polymers	Total formula weight	3508079.7
Non-Polymers*	Number of molecules	286
Non-Polymers*	Total formula weight	8155.3
All*	Total formula weight	3516234.9

*Water molecules are not included.

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		Validation report (PDF)