4V7L

The structures of viomycin bound to the 70S ribosome.

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, GB (AA, CA)	16S ribosomal RNA	polymer	1509	489961.0	2	GenBank (AP008226.1)	Thermus thermophilus
2	B, HB (AB, CB)	30S ribosomal protein S2	polymer	256	29317.7	2	UniProt (P80371) Pfam (PF00318)	Thermus thermophilus
3	C, IB (AC, CC)	30S ribosomal protein S3	polymer	239	26751.1	2	UniProt (P80372) Pfam (PF07650) Pfam (PF00189)	Thermus thermophilus
4	D, JB (AD, CD)	30S ribosomal protein S4	polymer	209	24373.4	2	UniProt (P80373) Pfam (PF00163) Pfam (PF01479)	Thermus thermophilus
5	E, KB (AE, CE)	30S ribosomal protein S5	polymer	162	17583.4	2	UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719)	Thermus thermophilus
6	F, LB (AF, CF)	30S ribosomal protein S6	polymer	101	11988.8	2	UniProt (Q5SLP8) Pfam (PF01250)	Thermus thermophilus
7	G, MB (AG, CG)	30S ribosomal protein S7	polymer	156	18051.0	2	UniProt (P17291) Pfam (PF00177)	Thermus thermophilus
8	H, NB (AH, CH)	30S ribosomal protein S8	polymer	138	15868.6	2	UniProt (Q5SHQ2)	Thermus thermophilus
9	I, OB (AI, CI)	30S ribosomal protein S9	polymer	128	14410.6	2	UniProt (P80374) Pfam (PF00380)	Thermus thermophilus
10	J, PB (AJ, CJ)	30S ribosomal protein S10	polymer	105	11955.0	2	UniProt (Q5SHN7) Pfam (PF00338)	Thermus thermophilus
11	K, QB (AK, CK)	30S ribosomal protein S11	polymer	129	13737.9	2	UniProt (P80376) Pfam (PF00411)	Thermus thermophilus
12	L, RB (AL, CL)	30S ribosomal protein S12	polymer	132	14637.4	2	UniProt (Q5SHN3) Pfam (PF00164)	Thermus thermophilus
13	M, SB (AM, CM)	30S ribosomal protein S13	polymer	126	14338.9	2	UniProt (P80377) Pfam (PF00416)	Thermus thermophilus
14	N, TB (AN, CN)	30S ribosomal protein S14	polymer	61	7158.7	2	UniProt (Q5SHQ1)	Thermus thermophilus
15	O, UB (AO, CO)	30S ribosomal protein S15	polymer	89	10578.4	2	UniProt (Q5SJ76) Pfam (PF00312)	Thermus thermophilus
16	P, VB (AP, CP)	30S ribosomal protein S16	polymer	88	10410.0	2	UniProt (Q5SJH3) Pfam (PF00886)	Thermus thermophilus
17	Q, WB (AQ, CQ)	30S ribosomal protein S17	polymer	105	12325.7	2	UniProt (Q5SHP7)	Thermus thermophilus
18	R, XB (AR, CR)	30S ribosomal protein S18	polymer	88	10258.3	2	UniProt (Q5SLQ0) Pfam (PF01084)	Thermus thermophilus
19	S, YB (AS, CS)	30S ribosomal protein S19	polymer	93	10605.5	2	UniProt (Q5SHP2) Pfam (PF00203)	Thermus thermophilus
20	T, ZB (AT, CT)	30S ribosomal protein S20	polymer	106	11736.1	2	UniProt (P80380) Pfam (PF01649)	Thermus thermophilus
21	AC, U (AU, CU)	30S ribosomal protein Thx	polymer	27	3350.0	2	UniProt (Q5SIH3) Pfam (PF17070)	Thermus thermophilus
22	BC, V (AV, CV)	RNA (5'-R(*AP*AP*AP*AP*AP*GP*GP*AP*AP*AP*UP*A*AP*AP*AP*AP*UP*GP*CP*AP*GP*UP*UP*CP*AP*AP*UP*CP*UP*A)-3')	polymer	30	9684.9	2
23	CC, W (AW, CW)	tRNA-Gln	polymer	75	24060.3	2	GenBank (CP001637.1)	Escherichia coli
24	DC, X (AX, CX)	tRNA-Met	polymer	77	24802.8	2	GenBank (CP001790.1) GenBank (CP001637.1)	Escherichia coli
25	EC, Y (AY, CY)	tRNA-Gln	polymer	75	24077.3	2	GenBank (CP001637.1)	Escherichia coli
26	FC, Z (AZ, CZ)	Viomycin	polymer	6	703.7	2	NOR (NOR00633) BIRD (PRD_000226)	Streptomyces puniceus
27	AA, GC (BA, DA)	23S ribosomal RNA	polymer	2915	947895.4	2	GenBank (AP008226.1)	Thermus thermophilus
28	BA, HC (BB, DB)	5S ribosomal RNA	polymer	122	39494.5	2	GenBank (AP008226.1)	Thermus thermophilus
29	CA, IC (BC, DC)	50S ribosomal protein L1	polymer	229	24872.7	2	UniProt (Q5SLP7) Pfam (PF00687)	Thermus thermophilus
30	DA, JC (BD, DD)	50S ribosomal protein L2	polymer	276	30532.6	2	UniProt (P60405) Pfam (PF00181) Pfam (PF03947)	Thermus thermophilus
31	EA, KC (BE, DE)	50S ribosomal protein L3	polymer	206	22450.2	2	UniProt (Q5SHN8) Pfam (PF00297)	Thermus thermophilus
32	FA, LC (BF, DF)	50S ribosomal protein L4	polymer	210	23271.9	2	UniProt (Q5SHN9) Pfam (PF00573)	Thermus thermophilus	L1e
33	GA, MC (BG, DG)	50S ribosomal protein L5	polymer	182	21061.6	2	UniProt (Q5SHQ0) Pfam (PF00281) Pfam (PF00673)	Thermus thermophilus
34	HA, NC (BH, DH)	50S ribosomal protein L6	polymer	180	19568.9	2	UniProt (Q5SHQ3)	Thermus thermophilus
35	IA, OC (BI, DI)	50S ribosomal protein L9	polymer	148	16422.2	2	UniProt (Q5SLQ1) Pfam (PF01281) Pfam (PF03948)	Thermus thermophilus
36	JA, PC (BN, DN)	50S ribosomal protein L13	polymer	140	15927.9	2	UniProt (P60488) Pfam (PF00572)	Thermus thermophilus
37	KA, QC (BO, DO)	50S ribosomal protein L14	polymer	122	13323.6	2	UniProt (Q5SHP8) Pfam (PF00238)	Thermus thermophilus
38	LA, RC (BP, DP)	50S ribosomal protein L15	polymer	150	16319.1	2	UniProt (Q5SHQ7) Pfam (PF00828)	Thermus thermophilus
39	MA, SC (BQ, DQ)	50S ribosomal protein L16	polymer	141	15993.9	2	UniProt (P60489) Pfam (PF00252)	Thermus thermophilus
40	NA, TC (BR, DR)	50S ribosomal protein L17	polymer	118	13750.1	2	UniProt (Q9Z9H5) Pfam (PF01196)	Thermus thermophilus
41	OA, UC (BS, DS)	50S ribosomal protein L18	polymer	112	12639.8	2	UniProt (Q5SHQ4) Pfam (PF00861)	Thermus thermophilus	TL24
42	PA, VC (BT, DT)	50S ribosomal protein L19	polymer	146	17188.8	2	UniProt (P60490) Pfam (PF01245)	Thermus thermophilus
43	QA, WC (BU, DU)	50S ribosomal protein L20	polymer	118	13779.3	2	UniProt (P60491) Pfam (PF00453)	Thermus thermophilus
44	RA, XC (BV, DV)	50S ribosomal protein L21	polymer	101	11069.2	2	UniProt (P60492) Pfam (PF00829)	Thermus thermophilus
45	SA, YC (BW, DW)	50S ribosomal protein L22	polymer	113	12808.1	2	UniProt (Q5SHP3) Pfam (PF00237)	Thermus thermophilus
46	TA, ZC (BX, DX)	50S ribosomal protein L23	polymer	96	10759.8	2	UniProt (Q5SHP0) Pfam (PF00276)	Thermus thermophilus
47	AD, UA (BY, DY)	50S ribosomal protein L24	polymer	110	12085.6	2	UniProt (Q5SHP9) Pfam (PF00467) Pfam (PF17136)	Thermus thermophilus
48	BD, VA (BZ, DZ)	50S ribosomal protein L25	polymer	206	23238.6	2	UniProt (Q5SHZ1) Pfam (PF01386) Pfam (PF14693)	Thermus thermophilus	TL5
49	CD, WA (B0, D0)	50S ribosomal protein L27	polymer	85	9529.1	2	UniProt (P60493) Pfam (PF01016)	Thermus thermophilus
50	DD, XA (B1, D1)	50S ribosomal protein L28	polymer	98	11004.2	2	UniProt (P60494) Pfam (PF00830)	Thermus thermophilus
51	ED, YA (B2, D2)	50S ribosomal protein L29	polymer	72	8670.3	2	UniProt (Q5SHP6) Pfam (PF00831)	Thermus thermophilus
52	FD, ZA (B3, D3)	50S ribosomal protein L30	polymer	60	6799.1	2	UniProt (Q5SHQ6) Pfam (PF00327)	Thermus thermophilus
53	AB, GD (B4, D4)	50S ribosomal protein L31	polymer	71	8300.5	2	UniProt (Q5SJE1) Pfam (PF01197)	Thermus thermophilus
54	BB, HD (B5, D5)	50S ribosomal protein L32	polymer	60	6722.1	2	UniProt (P80339) Pfam (PF01783)	Thermus thermophilus
55	CB, ID (B6, D6)	50S ribosomal protein L33	polymer	54	6632.9	2	UniProt (P35871) Pfam (PF00471)	Thermus thermophilus
56	DB, JD (B7, D7)	50S ribosomal protein L34	polymer	49	6132.4	2	UniProt (P80340) Pfam (PF00468)	Thermus thermophilus
57	EB, KD (B8, D8)	50S ribosomal protein L35	polymer	65	7506.2	2	UniProt (Q5SKU1) Pfam (PF01632)	Thermus thermophilus
58	FB, LD (B9, D9)	50S ribosomal protein L36	polymer	37	4435.4	2	UniProt (Q5SHR2) Pfam (PF00444)	Thermus thermophilus	Ribosomal protein B
59	AAA, ABA, ACA, ADA, AE... (CA, AA, DA, AT, BA...)	MAGNESIUM ION	non-polymer		24.3	965	Chemie (MG)
60	JDA, RI, ROA, RZ, TZ... (CD, AD, D4, B4, B5...)	ZINC ION	non-polymer		65.4	8	Chemie (ZN)

Sequence modifications

AX, CX: 1 - 76 (GenBank: CP001790.1)
AY, CY: 1 - 75 (GenBank: CP001637.1)

PDB	External Database	Details
G 33	C 3184535	conflict
U 44	A 3184546	conflict

Contents of the asymmetric unit

Polymers	Number of chains	116
	Total formula weight	4545824.7
Non-Polymers*	Number of molecules	973
	Total formula weight	23977.6
All*	Total formula weight	4569802.3

*Water molecules are not included.