Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

7QIW

Specific features and methylation sites of a plant ribosome. 60S ribosomal subunit.

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 (D)	60S ribosomal protein L8	polymer	260	28331.9	1	UniProt (P29766) Pfam (PF00181) Pfam (PF03947)	Solanum lycopersicum (tomato)	L2,Ribosomal protein TL2
2	B (F)	Ribos_L4_asso_C domain-containing protein	polymer	406	44852.0	1	UniProt (A0A3Q7HW81) Pfam (PF00573) Pfam (PF14374)	Solanum lycopersicum (tomato)
3	C (E)	Ribosomal protein L3	polymer	389	44518.2	1	UniProt (Q6SKP4) Pfam (PF00297)	Solanum lycopersicum (tomato)
4	D (G)	Ribosomal_L18_c domain-containing protein	polymer	301	34667.3	1	UniProt (A0A3Q7H274) Pfam (PF17144) Pfam (PF14204)	Solanum lycopersicum (tomato)
5	E (H)	Ribosomal_L6e_N domain-containing protein	polymer	229	25621.5	1	UniProt (A0A3Q7GMA5) Pfam (PF03868) Pfam (PF01159)	Solanum lycopersicum (tomato)
6	F (I)	Thaliana 60S ribosomal protein L7	polymer	242	28058.0	1	UniProt (M1BRF8) Pfam (PF08079) Pfam (PF00327)	Solanum lycopersicum (tomato)
7	G (J)	Ribosomal_L7Ae domain-containing protein	polymer	258	29362.1	1	UniProt (A0A3Q7GV73) Pfam (PF01248)	Solanum lycopersicum (tomato)
8	H (K)	60S ribosomal protein uL6	polymer	194	22004.6	1	UniProt (A0A3Q7JDZ0) Pfam (PF00347)	Solanum lycopersicum (tomato)
9	I (L)	60S ribosomal protein L10	polymer	220	24913.3	1	UniProt (Q3SC85) Pfam (PF00252)	Solanum lycopersicum (tomato)
10	J (M)	60S ribosomal protein uL5	polymer	181	20826.2	1	UniProt (K4CG62) Pfam (PF00281) Pfam (PF00673)	Solanum lycopersicum (tomato)
11	K (N)	60S ribosomal protein L13	polymer	206	23620.6	1	UniProt (A0A3Q7JCM5) Pfam (PF01294)	Solanum lycopersicum (tomato)
12	L (O)	Ribosomal_L14e domain-containing protein	polymer	133	15400.4	1	UniProt (A0A3Q7J0J5) Pfam (PF01929)	Solanum lycopersicum (tomato)
13	M (P)	Ribosomal protein L15	polymer	204	24233.3	1	UniProt (A0A3Q7HQH0) Pfam (PF00827)	Solanum lycopersicum (tomato)
14	N (Q)	60S ribosomal protein uL13	polymer	206	23613.2	1	UniProt (A0A6N2B4A3) Pfam (PF00572)	Solanum lycopersicum (tomato)
15	O (R)	50S ribosomal protein L22, chloroplastic	polymer	173	19785.7	1	UniProt (A0A3Q7FNQ5) Pfam (PF00237)	Solanum lycopersicum (tomato)
16	P (S)	Ribosomal_L18e/L15P domain-containing protein	polymer	187	20764.5	1	UniProt (A0A3Q7I5W4) Pfam (PF17135)	Solanum lycopersicum (tomato)
17	Q (T)	Ribosomal protein L19	polymer	213	24786.6	1	UniProt (A0A3Q7GQ29) Pfam (PF01280)	Solanum lycopersicum (tomato)
18	R (U)	60S ribosomal protein L18a	polymer	178	21476.3	1	UniProt (A0A3Q7IGB1) Pfam (PF01775)	Solanum lycopersicum (tomato)
19	S (V)	60S ribosomal protein eL21	polymer	164	18715.8	1	UniProt (A0A3Q7IJQ0) Pfam (PF01157)	Solanum lycopersicum (tomato)
20	T (W)	60S ribosomal protein eL22	polymer	124	13996.1	1	UniProt (A0A3Q7I7E8) Pfam (PF01776)	Solanum lycopersicum (tomato)
21	U (X)	60S ribosomal protein uL14	polymer	140	15040.9	1	UniProt (K4CUW3) Pfam (PF00238)	Solanum lycopersicum (tomato)
22	V (Y)	TRASH domain-containing protein	polymer	165	18712.1	1	UniProt (A0A3Q7IN69) Pfam (PF01246)	Solanum lycopersicum (tomato)
23	W (Z)	Ribosomal_L23eN domain-containing protein	polymer	154	17427.7	1	UniProt (A0A3Q7INK3) Pfam (PF03939) Pfam (PF00276)	Solanum lycopersicum (tomato)
24	X (a)	KOW domain-containing protein	polymer	146	16750.5	1	UniProt (A0A3Q7FBC6) Pfam (PF16906) Pfam (PF00467)	Solanum lycopersicum (tomato)
25	Y (b)	60S ribosomal protein L27	polymer	135	15698.6	1	UniProt (A0A3Q7GZ83) Pfam (PF01777)	Solanum lycopersicum (tomato)
26	Z (c)	Putative 60S ribosomal protein L27a-3-like	polymer	148	16479.4	1	UniProt (A0A0V0H357) Pfam (PF00828)	Solanum lycopersicum (tomato)
27	AA (d)	60S ribosomal protein L29	polymer	60	6989.9	1	UniProt (A0A3Q7GK12) Pfam (PF01779)	Solanum lycopersicum (tomato)
28	BA (e)	Ribosomal_L7Ae domain-containing protein	polymer	112	12367.5	1	UniProt (A0A3Q7E9D6) Pfam (PF01248)	Solanum lycopersicum (tomato)
29	CA (f)	60S ribosomal protein eL31	polymer	120	13890.2	1	UniProt (A0A3Q7JRW8) Pfam (PF01198)	Solanum lycopersicum (tomato)
30	DA (g)	60S ribosomal protein eL32	polymer	133	15673.5	1	UniProt (A0A3Q7F2B5) Pfam (PF01655)	Solanum lycopersicum (tomato)
31	EA (h)	60S ribosomal protein eL33	polymer	112	12952.2	1	UniProt (A0A3Q7FPS6) Pfam (PF01247)	Solanum lycopersicum (tomato)
32	FA (i)	60S ribosomal protein eL34	polymer	120	13815.4	1	UniProt (A0A3Q7GDM4) Pfam (PF01199)	Solanum lycopersicum (tomato)
33	GA (j)	Similar to 60S ribosomal protein L35	polymer	123	14324.4	1	UniProt (Q53U38) Pfam (PF00831)	Solanum lycopersicum (tomato)
34	HA (k)	60S ribosomal protein L36	polymer	110	12406.9	1	UniProt (A0A3Q7GUG2) Pfam (PF01158)	Solanum lycopersicum (tomato)
35	IA (l)	Ribosomal protein L37	polymer	95	10809.6	1	UniProt (A0A3Q7FV98) Pfam (PF01907)	Solanum lycopersicum (tomato)
36	JA (m)	60S ribosomal protein L38	polymer	69	8101.7	1	UniProt (P46291) Pfam (PF01781)	Solanum lycopersicum (tomato)
37	KA (n)	60S ribosomal protein eL39	polymer	51	6489.8	1	UniProt (A0A3Q7J415) Pfam (PF00832)	Solanum lycopersicum (tomato)
38	LA (o)	Ubiquitin-like domain-containing protein	polymer	128	14745.4	1	UniProt (K4B017) Pfam (PF00240) Pfam (PF01020)	Solanum lycopersicum (tomato)
39	MA (p)	60S ribosomal protein eL42	polymer	105	12037.3	1	UniProt (A0A3Q7H1I0) Pfam (PF00935)	Solanum lycopersicum (tomato)
40	NA (q)	60S ribosomal protein eL43	polymer	92	10280.1	1	UniProt (K4CND1) Pfam (PF01780)	Solanum lycopersicum (tomato)
41	OA (r)	Ribosomal_L28e domain-containing protein	polymer	143	16018.6	1	UniProt (A0A3Q7FVJ9) Pfam (PF01778)	Solanum lycopersicum (tomato)
42	PA (s)	tRNA	polymer	2	589.4	1		Solanum lycopersicum (tomato)
43	QA (2)	25S rRNA	polymer	3391	1098453.0	1	GenBank (2090998066)	Solanum lycopersicum (tomato)
44	RA (5)	5S rRNA	polymer	120	38634.9	1	GenBank (19159)	Solanum lycopersicum (tomato)
45	SA (8)	5.8S rRNA	polymer	165	53173.6	1	GenBank (1418500722)	Solanum lycopersicum (tomato)
46	AB, AC, AD, AE, BB... (N, 2, i, p, D...)	POTASSIUM ION	non-polymer		39.1	90	Chemie (K)
47	AF, AG, AH, AI, AJ... (2, 8, N, R, T...)	MAGNESIUM ION	non-polymer		24.3	276	Chemie (MG)
48	IB, JB, LB, MB (l, o, p, q)	ZINC ION	non-polymer		65.4	4	Chemie (ZN)
49	OE, PE, RE (2)	SPERMINE	non-polymer		202.3	3	Chemie (SPM)
50	QE (2)	SPERMIDINE	non-polymer		145.2	1	Chemie (SPD)
51	AQ, BQ, CQ, DP, DQ... (c, d, f, D, g...)	water	water		18.0	3935	Chemie (HOH)

Sequence modifications

F: 1 - 406 (UniProt: A0A3Q7HW81)

PDB	External Database	Details
Val 162	Ile 162	conflict
Asn 170	Val 170	conflict
Gln 277	Leu 277	conflict
Ala 366	Gln 366	conflict

G: 1 - 301 (UniProt: A0A3Q7H274)

PDB	External Database	Details
Phe 51	Leu 51	conflict
His 85	Arg 85	conflict

J: 1 - 258 (UniProt: A0A3Q7GV73)

PDB	External Database	Details
Ser 10	Ala 114	conflict
Ala 18	Ser 122	conflict
Leu 21	Val 125	conflict

K: 1 - 194 (UniProt: A0A3Q7JDZ0)

PDB	External Database	Details
Gln 24	Leu 24	conflict
Val 27	Ile 27	conflict
Gly 65	Ser 65	conflict
Thr 69	Ala 69	conflict
Ser 109	Thr 109	conflict

N: 1 - 206 (UniProt: A0A3Q7JCM5)

PDB	External Database	Details
Arg 128	His 128	conflict

P: 1 - 204 (UniProt: A0A3Q7HQH0)

PDB	External Database	Details
Val 135	Ile 135	conflict
Gln 137	Ser 137	conflict

R: 1 - 173 (UniProt: A0A3Q7FNQ5)

PDB	External Database	Details
Ser 46	Arg 46	conflict

S: 1 - 187 (UniProt: A0A3Q7I5W4)

PDB	External Database	Details
Thr 17	Ile 17	conflict
Ala 37	Ser 37	conflict
Pro 60	Ala 60	conflict
Ile 68	Val 68	conflict
Ala 71	Met 71	conflict
Gly 75	Glu 75	conflict
Val 79	Ala 79	conflict
Leu 81	Val 81	conflict
Cys 100	Thr 100	conflict
Lys 103	Arg 103	conflict
Leu 136	Val 136	conflict
Pro 153	Lys 153	conflict

T: 1 - 213 (UniProt: A0A3Q7GQ29)

PDB	External Database	Details
Lys 178	Glu 178	conflict
Lys 179	Glu 179	conflict

U: 1 - 178 (UniProt: A0A3Q7IGB1)

PDB	External Database	Details
Thr 73	Lys 73	conflict
Ala 104	Gly 104	conflict

Y: 1 - 164 (UniProt: A0A3Q7IN69)

PDB	External Database	Details
Met 0	-	initiating methionine

Z: 1 - 154 (UniProt: A0A3Q7INK3)

PDB	External Database	Details
Ser 55	Asn 55	conflict
Val 61	Ile 61	conflict
Ala 73	Gln 73	conflict
Ile 74	Val 74	conflict
Tyr 77	Cys 77	conflict
Lys 101	His 101	conflict

a: 1 - 146 (UniProt: A0A3Q7FBC6)

PDB	External Database	Details
Val 25	Leu 25	conflict
Asn 43	Ser 43	conflict
Asn 99	His 99	conflict
Val 105	Ile 105	conflict

b: 1 - 135 (UniProt: A0A3Q7GZ83)

PDB	External Database	Details
Phe 117	Leu 117	conflict

c: 1 - 148 (UniProt: A0A0V0H357)

PDB	External Database	Details
Val 82	Leu 82	conflict
Ile 129	Val 129	conflict

e: 1 - 112 (UniProt: A0A3Q7E9D6)

PDB	External Database	Details
Gly 43	Ala 43	conflict
Leu 55	Ile 55	conflict
Tyr 89	Phe 89	conflict
Ser 92	Cys 92	conflict

f: 1 - 120 (UniProt: A0A3Q7JRW8)

PDB	External Database	Details
Val 76	Ile 76	conflict

j: 1 - 123 (UniProt: Q53U38)

PDB	External Database	Details
Ala 67	Leu 67	conflict
Val 72	Ala 72	conflict
Ser 100	Ala 100	conflict
Met 112	Leu 112	conflict

k: 1 - 110 (UniProt: A0A3Q7GUG2)

PDB	External Database	Details
Lys 88	Arg 124	conflict

l: 1 - 95 (UniProt: A0A3Q7FV98)

PDB	External Database	Details
Leu 44	Lys 44	conflict

o: 1 - 128 (UniProt: K4B017)

PDB	External Database	Details
Arg 113	Lys 113	conflict

p: 1 - 105 (UniProt: A0A3Q7H1I0)

PDB	External Database	Details
Gly 76	Ser 76	conflict
Val 80	Met 80	conflict

Sequence viewer

Contents of the asymmetric unit

Polymers	Number of chains	45
Polymers	Total formula weight	1981410.6
Non-Polymers*	Number of molecules	374
Non-Polymers*	Total formula weight	11240.9
All*	Total formula weight	1992651.5

*Water molecules are not included.

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