Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

9VTI

cryoEM structure of tobacco mosaic virus tRNA-like structure complexed with tobacco 80S

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 (SA)	Small ribosomal subunit protein uS2	polymer	257	28579.4	1	UniProt (A0A1U7W513)	Nicotiana benthamiana
2	B (SB)	30S ribosomal protein S3, chloroplastic	polymer	248	27746.6	1	UniProt (A0A1U7WQT4)	Nicotiana benthamiana
3	C (SC)	40S ribosomal protein S9-2-like	polymer	187	22070.9	1	UniProt (A0A1U7X6K6)	Nicotiana benthamiana
4	D (SD)	Small ribosomal subunit protein uS5	polymer	280	30697.7	1	UniProt (A0A1U7Y544)	Nicotiana benthamiana	40S ribosomal protein S2
5	E (SE)	40S ribosomal protein S5	polymer	210	23374.9	1	UniProt (A0A1S4AYA1)	Nicotiana benthamiana
6	F (SF)	Small ribosomal subunit protein uS8c	polymer	130	14815.4	1	UniProt (A0A1U7YEG5)	Nicotiana benthamiana
7	G (SG)	40S ribosomal protein S16	polymer	147	16731.7	1	UniProt (A0A1S4AU23)	Nicotiana benthamiana
8	H (SH)	40S ribosomal protein S20-2	polymer	122	13651.9	1	UniProt (A0A1S3XHL0)	Nicotiana benthamiana
9	I (SI)	40S ribosomal protein S14-2	polymer	150	16375.8	1	UniProt (A0A1U7X6S8)	Nicotiana benthamiana
10	J (SJ)	40S ribosomal protein S23	polymer	142	15771.6	1	UniProt (A0A1U7W217)	Nicotiana benthamiana
11	K (SK)	40S ribosomal protein S18	polymer	141	16375.0	1	UniProt (A0A1S4AJE0)	Nicotiana benthamiana
12	L (SL)	40S ribosomal protein S29	polymer	56	6455.6	1	UniProt (A0A1U7V0A7)	Nicotiana benthamiana
13	M (SM)	40S ribosomal protein S13	polymer	151	17099.3	1	UniProt (A0A1S3ZRI7)	Nicotiana benthamiana
14	N (SN)	40S ribosomal protein S11	polymer	159	17724.8	1	UniProt (A0A1S4BW10)	Nicotiana benthamiana
15	O (SO)	40S ribosomal protein S15-like	polymer	152	17274.4	1	UniProt (A0A1U7X1Z5)	Nicotiana benthamiana
16	P (SP)	Small ribosomal subunit protein eS1	polymer	261	29782.6	1	UniProt (Q285L8)	Nicotiana benthamiana	40S ribosomal protein S3a,Protein cyc07
17	Q (SQ)	40S ribosomal protein S4	polymer	264	29971.2	1	UniProt (A0A1S4DQ51)	Nicotiana benthamiana
18	R (SR)	40S ribosomal protein S6	polymer	249	28355.3	1	UniProt (A0A1S3Z3Y7)	Nicotiana benthamiana
19	S (SS)	40S ribosomal protein S7	polymer	191	22164.7	1	UniProt (A0A1S3Z906)	Nicotiana benthamiana
20	T (ST)	40S ribosomal protein S8	polymer	212	24166.8	1	UniProt (A0A1S4CZK3)	Nicotiana benthamiana
21	U (SU)	40S ribosomal protein S10-1	polymer	118	13924.3	1	UniProt (A0A1S4DHU6)	Nicotiana benthamiana
22	V (SV)	40S ribosomal protein S12	polymer	143	15147.5	1	UniProt (A0A1S4BEE0)	Nicotiana benthamiana
23	W (SW)	40S ribosomal protein S17-like	polymer	131	15091.7	1	UniProt (A0A1S3Z9G2)	Nicotiana benthamiana
24	X (SX)	40S ribosomal protein S19-3-like	polymer	143	16034.4	1	UniProt (A0A1S4CYT7)	Nicotiana benthamiana
25	Y (SY)	40S ribosomal protein S21	polymer	82	9304.4	1	UniProt (A0A1S4C2G0)	Nicotiana benthamiana
26	Z (SZ)	40S ribosomal protein S24	polymer	133	15429.3	1	UniProt (A0A1S3ZXI6)	Nicotiana benthamiana
27	AA (Sa)	40S ribosomal protein S25	polymer	74	8325.7	1	UniProt (A0A1U7UZX1)	Nicotiana benthamiana
28	BA (Sb)	40S ribosomal protein S26	polymer	113	13206.6	1	UniProt (A0A1S4A5C8)	Nicotiana benthamiana
29	CA (Sc)	40S ribosomal protein S27	polymer	85	9498.0	1	UniProt (A0A1S4BH20)	Nicotiana benthamiana
30	DA (Sd)	40S ribosomal protein S28	polymer	65	7481.7	1	UniProt (A0A1U7VNF8)	Nicotiana benthamiana
31	EA (Se)	40S ribosomal protein S30	polymer	62	6953.3	1	UniProt (A0A1S3XGJ0)	Nicotiana benthamiana
32	FA (Sf)	Ubiquitin-40S ribosomal protein S27a-like	polymer	156	17739.7	1	UniProt (A0A1U7WCX2)	Nicotiana benthamiana
33	GA (LA)	Ribosomal protein	polymer	217	24778.4	1	UniProt (A0A1S3Y379)	Nicotiana benthamiana
34	HA (LB)	60S ribosomal protein L8-like	polymer	260	28220.7	1	UniProt (A0A1S3XXQ5)	Nicotiana benthamiana
35	IA (LC)	60S ribosomal protein L3	polymer	389	44552.3	1	UniProt (A0A1S3ZLI9)	Nicotiana benthamiana
36	JA (LD)	60S ribosomal protein L4-like	polymer	405	44778.9	1	UniProt (A0A1S4BWA4)	Nicotiana benthamiana
37	KA (LE)	60S ribosomal protein L11-1	polymer	181	20794.2	1	UniProt (A0A1S3XAW1)	Nicotiana benthamiana
38	LA (LF)	60S ribosomal protein L9-1	polymer	194	22058.7	1	UniProt (A0A1S4CJ62)	Nicotiana benthamiana
39	MA (LG)	60S ribosomal protein L13a-4	polymer	206	23583.2	1	UniProt (A0A1S3Z662)	Nicotiana benthamiana
40	NA (LH)	60S ribosomal protein L23	polymer	140	15040.9	1	UniProt (A0A1S3XSQ1)	Nicotiana benthamiana	Large ribosomal subunit protein uL14
41	OA (LI)	60s ribosomal protein l27a-3	polymer	148	16504.3	1	UniProt (A0A1J6IJF4)	Nicotiana benthamiana
42	PA (LJ)	60S ribosomal protein L10	polymer	219	24841.3	1	UniProt (A0A1S3Z2D7)	Nicotiana benthamiana
43	QA (LK)	60S ribosomal protein L5-like	polymer	293	33691.6	1	UniProt (A0A1S3XE16)	Nicotiana benthamiana
44	RA (LL)	60S ribosomal protein L17-1 isoform X2	polymer	175	19906.9	1	UniProt (A0A1S4DQP0)	Nicotiana benthamiana
45	SA (LM)	Large ribosomal subunit protein uL23	polymer	154	17355.5	1	UniProt (Q07761)	Nicotiana benthamiana	60S ribosomal protein L23a,L25
46	TA (LN)	60S ribosomal protein L26-1	polymer	146	16808.6	1	UniProt (A0A1S4CC07)	Nicotiana benthamiana
47	UA (LO)	60S ribosomal protein L35-like	polymer	123	14324.4	1	UniProt (A0A1S3WY31)	Nicotiana benthamiana
48	VA (LP)	60S ribosomal protein L7-4-like	polymer	242	28147.9	1	UniProt (A0A1U7X2X8)	Nicotiana benthamiana
49	WA (LQ)	60S ribosomal protein L6-like isoform X1	polymer	230	25493.3	1	UniProt (A0A1U7WD54)	Nicotiana benthamiana
50	XA (LR)	60S ribosomal protein L7a	polymer	237	27223.5	1	UniProt (A0A1U7XNI3)	Nicotiana benthamiana
51	YA (LS)	60S ribosomal protein L13	polymer	200	22862.7	1	UniProt (A0A1S4CSN1)	Nicotiana benthamiana
52	ZA (LT)	60S ribosomal protein L14-1	polymer	130	15027.0	1	UniProt (A0A1U7UYX7)	Nicotiana benthamiana
53	AB (LU)	Ribosomal protein L15	polymer	204	24226.3	1	UniProt (A0A1S3XIA7)	Nicotiana benthamiana
54	BB (LV)	60S ribosomal protein L18-2	polymer	187	20905.8	1	UniProt (A0A1S4DF55)	Nicotiana benthamiana
55	CB (LW)	Ribosomal protein L19	polymer	211	24742.3	1	UniProt (A0A1S4A7M5)	Nicotiana benthamiana
56	DB (LX)	60S ribosomal protein L18a	polymer	178	21513.3	1	UniProt (A0A1U7V5H1)	Nicotiana benthamiana
57	EB (LY)	60S ribosomal protein L21-1-like	polymer	164	18716.9	1	UniProt (A0A1S3XCW6)	Nicotiana benthamiana
58	FB (LZ)	Large ribosomal subunit protein eL22	polymer	108	12506.3	1	UniProt (A0A1S4BSU3)	Nicotiana benthamiana	60S ribosomal protein L22
59	GB (La)	60S ribosomal protein L24	polymer	164	18606.0	1	UniProt (A0A1S4BHF2)	Nicotiana benthamiana
60	HB (Lb)	60S ribosomal protein L27	polymer	135	15692.7	1	UniProt (A0A1S3XBV7)	Nicotiana benthamiana
61	IB (Lc)	60S ribosomal protein L28-1-like	polymer	143	15987.7	1	UniProt (A0A1U7WYY1)	Nicotiana benthamiana
62	JB (Ld)	60S ribosomal protein L29	polymer	50	5914.7	1		Nicotiana benthamiana
63	KB (Le)	60S ribosomal protein L30	polymer	113	12420.5	1	UniProt (A0A1S3WZ09)	Nicotiana benthamiana
64	LB (Lf)	60S ribosomal protein L31	polymer	120	13894.2	1	UniProt (A0A1S3Y3V5)	Nicotiana benthamiana
65	MB (Lg)	60S ribosomal protein L32-1	polymer	133	15637.5	1	UniProt (A0A1U7YAK1)	Nicotiana benthamiana
66	NB (Lh)	60S ribosomal protein L35a-3-like	polymer	112	12959.2	1	UniProt (A0A1S4AHL7)	Nicotiana benthamiana
67	OB (Li)	Large ribosomal subunit protein eL34	polymer	120	13788.4	1	UniProt (P41098)	Nicotiana benthamiana	60S ribosomal protein L34
68	PB (Lj)	60S ribosomal protein L36	polymer	110	12389.9	1	UniProt (A0A1U7VXX3)	Nicotiana benthamiana
69	QB (Lk)	Ribosomal protein L37	polymer	95	10879.8	1	UniProt (A0A1S4DN51)	Nicotiana benthamiana
70	RB (Ll)	60S ribosomal protein L38	polymer	69	8101.7	1	UniProt (A0A1S4C4G8)	Nicotiana benthamiana
71	SB (Lm)	60S ribosomal protein L39-3	polymer	51	6503.8	1	UniProt (A0A1U7Y1K3)	Nicotiana benthamiana
72	TB (Ln)	Ubiquitin-60S ribosomal protein L40	polymer	128	14703.4	1	UniProt (A0A1U7X7W2)	Nicotiana benthamiana
73	UB (Lo)	60s ribosomal protein l41-like	polymer	25	3443.4	1		Nicotiana benthamiana
74	VB (Lp)	60S ribosomal protein L44	polymer	105	11991.3	1	UniProt (A0A1U7YPT7)	Nicotiana benthamiana
75	WB (Lq)	60S ribosomal protein L37a	polymer	77	8624.2	1	UniProt (A0A1U7XSD1)	Nicotiana benthamiana
76	XB (10)	25S rRNA	polymer	204	65633.8	1		Nicotiana benthamiana
77	YB (11)	18S rRNA	polymer	1808	582853.9	1	GenBank (806909817)	Nicotiana benthamiana
78	ZB (12)	5S rRNA	polymer	119	38328.8	1		Nicotiana benthamiana
79	AC (13)	5.8S rRNA	polymer	163	52534.2	1		Nicotiana benthamiana
80	BC (14)	25S rRNA	polymer	3390	1097118.1	1		Nicotiana benthamiana
81	CC, DC, EC, FC, GC... (10, 14)	MAGNESIUM ION	non-polymer		24.3	9	Chemie (MG) PubChem (888)
82	LC, MC (10, 14)	water	water		18.0	34	Chemie (HOH)

Sequence modifications

SA: 1 - 257 (UniProt: A0A1U7W513)

PDB	External Database	Details
Glu 214	Gln 214	conflict
Gly 230	Ala 230	conflict

SB: 1 - 248 (UniProt: A0A1U7WQT4)

PDB	External Database	Details
Asn 95	Ser 95	conflict
Ser 215	Pro 215	conflict
Lys 220	Glu 220	conflict

SD: 1 - 280 (UniProt: A0A1U7Y544)

PDB	External Database	Details
Ser 268	Pro 268	conflict
Thr 269	Ala 269	conflict

SE: 1 - 210 (UniProt: A0A1S4AYA1)

PDB	External Database	Details
Ser 16	Asn 16	conflict

SR: 1 - 249 (UniProt: A0A1S3Z3Y7)

PDB	External Database	Details
Thr 170	Asn 170	conflict

SS: 1 - 191 (UniProt: A0A1S3Z906)

PDB	External Database	Details
Phe 22	Ser 22	conflict
Ala 29	Asp 29	conflict
Met 50	Val 50	conflict
Leu 63	Ile 63	conflict
His 144	Arg 144	conflict
Leu 183	Val 183	conflict

ST: 1 - 212 (UniProt: A0A1S4CZK3)

PDB	External Database	Details
Ser 20	Ala 20	conflict
Ser 40	Ala 40	conflict

SU: 8 - 125 (UniProt: A0A1S4DHU6)

PDB	External Database	Details
Arg 12	Trp 12	conflict

SW: 1 - 131 (UniProt: A0A1S3Z9G2)

PDB	External Database	Details
Ile 93	Thr 93	conflict
Met 109	Leu 109	conflict
Val 126	Ala 126	conflict
Met 127	Ile 127	conflict

SX: 1 - 143 (UniProt: A0A1S4CYT7)

PDB	External Database	Details
Ala 142	Ser 142	conflict

SY: 1 - 82 (UniProt: A0A1S4C2G0)

PDB	External Database	Details
Gly 67	Ala 67	conflict

Sc: 1 - 85 (UniProt: A0A1S4BH20)

PDB	External Database	Details
Gly 2	Val 2	conflict
Met 9	Ser 9	conflict

LA: 1 - 217 (UniProt: A0A1S3Y379)

PDB	External Database	Details
Ser 2	-	insertion
Ile 216	Val 215	conflict

LC: 1 - 389 (UniProt: A0A1S3ZLI9)

PDB	External Database	Details
Ser 200	Gly 200	conflict
Glu 308	Asp 308	conflict
Glu 381	Gln 381	conflict

LD: 1 - 405 (UniProt: A0A1S4BWA4)

PDB	External Database	Details
Val 27	Leu 27	conflict

LF: 1 - 194 (UniProt: A0A1S4CJ62)

PDB	External Database	Details
Lys 125	Arg 125	conflict
Val 191	Ala 191	conflict

LI: 1 - 148 (UniProt: A0A1J6IJF4)

PDB	External Database	Details
Ser 94	Asn 94	conflict

LK: 1 - 293 (UniProt: A0A1S3XE16)

PDB	External Database	Details
Arg 85	Gln 85	conflict
Thr 126	Ser 126	conflict
Val 150	Ile 150	conflict
Phe 218	Tyr 218	conflict

LL: 1 - 175 (UniProt: A0A1S4DQP0)

PDB	External Database	Details
Lys 46	Arg 46	conflict
Ser 168	Pro 168	conflict

LM: 1 - 154 (UniProt: Q07761)

PDB	External Database	Details
Phe 31	Leu 31	conflict

LO: 1 - 123 (UniProt: A0A1S3WY31)

PDB	External Database	Details
Ala 100	Val 100	conflict

LP: 1 - 242 (UniProt: A0A1U7X2X8)

PDB	External Database	Details
Pro 7	Leu 7	conflict
Arg 64	Gln 64	conflict
Asp 157	Glu 157	conflict

LQ: 1 - 230 (UniProt: A0A1U7WD54)

PDB	External Database	Details
Ile 60	Phe 60	conflict
Lys 97	Arg 97	conflict
Val 144	Ile 144	conflict
Ser 148	Asn 148	conflict
Phe 152	Ile 152	conflict
Glu 187	Gly 187	conflict

LR: 22 - 258 (UniProt: A0A1U7XNI3)

PDB	External Database	Details
Ile 108	Val 108	conflict
Lys 110	Arg 110	conflict

LS: 1 - 200 (UniProt: A0A1S4CSN1)

PDB	External Database	Details
Val 139	Ala 139	conflict
Glu 163	Asp 163	conflict

LT: 1 - 130 (UniProt: A0A1U7UYX7)

PDB	External Database	Details
Thr 82	Asn 82	conflict
Asn 86	Ser 86	conflict
Ala 101	Ser 101	conflict

LW: 1 - 211 (UniProt: A0A1S4A7M5)

PDB	External Database	Details
Val 190	Ala 190	conflict
Ser 195	Pro 195	conflict
Thr 197	Ala 197	conflict
Pro 198	Ser 198	conflict

LZ: 20 - 127 (UniProt: A0A1S4BSU3)

PDB	External Database	Details
Ala 61	Thr 61	conflict
Ala 63	Thr 63	conflict

Lc: 1 - 143 (UniProt: A0A1U7WYY1)

PDB	External Database	Details
Tyr 53	Asn 53	conflict
Ala 98	Thr 98	conflict

Lg: 1 - 133 (UniProt: A0A1U7YAK1)

PDB	External Database	Details
Thr 9	Lys 9	conflict

Lh: 1 - 112 (UniProt: A0A1S4AHL7)

PDB	External Database	Details
Val 57	Ile 57	conflict
Lys 91	Asn 91	conflict

Lj: 1 - 110 (UniProt: A0A1U7VXX3)

PDB	External Database	Details
Ser 45	Gly 45	conflict

Lp: 1 - 105 (UniProt: A0A1U7YPT7)

PDB	External Database	Details
Gly 17	Cys 17	conflict

Lq: 1 - 77 (UniProt: A0A1U7XSD1)

PDB	External Database	Details
Thr 8	Ala 8	conflict
Asn 35	Ser 35	conflict
Tyr 59	Asp 59	conflict
Asn 62	Lys 62	conflict
Val 65	Ala 65	conflict
Asp 76	Ala 76	conflict

11: 1 - 1808 (GenBank: 806909817)

PDB	External Database	Details
U 794	C 2249	conflict
A 1134	U 2589	conflict

Sequence viewer

Contents of the asymmetric unit

Polymers	Number of chains	80
Polymers	Total formula weight	3213934.3
Non-Polymers*	Number of molecules	9
Non-Polymers*	Total formula weight	218.7
All*	Total formula weight	3214153.1

*Water molecules are not included.

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