4WOI

4,5-linked aminoglycoside antibiotics regulate the bacterial ribosome by targeting dynamic conformational processes within intersubunit bridge B2

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, JC (AA, DA)	16S ribosomal RNA	polymer	1542	499690.0	2	GenBank (359330873)	Escherichia coli str. K-12 substr. MDS42
2	B, KC (AB, DB)	30S ribosomal protein S2	polymer	241	26781.7	2	UniProt (P0A7V0) Pfam (PF00318)	Escherichia coli
3	C, LC (AC, DC)	30S ribosomal protein S3	polymer	233	26031.3	2	UniProt (P0A7V3) Pfam (PF07650) Pfam (PF00189)	Escherichia coli
4	D, MC (AD, DD)	30S ribosomal protein S4	polymer	206	23514.2	2	UniProt (P0A7V8) Pfam (PF00163) Pfam (PF01479)	Escherichia coli
5	E, NC (AE, DE)	30S ribosomal protein S5	polymer	167	17629.4	2	UniProt (P0A7W1) Pfam (PF00333) Pfam (PF03719)	Escherichia coli
6	F, OC (AF, DF)	30S ribosomal protein S6	polymer	135	15727.5	2	UniProt (P02358) Pfam (PF01250)	Escherichia coli
7	G, PC (AG, DG)	30S ribosomal protein S7	polymer	179	20055.2	2	UniProt (P02359) Pfam (PF00177)	Escherichia coli
8	H, QC (AH, DH)	30S ribosomal protein S8	polymer	130	14146.6	2	UniProt (P0A7W7) Pfam (PF00410)	Escherichia coli
9	I, RC (AI, DI)	30S ribosomal protein S9	polymer	130	14886.3	2	UniProt (P0A7X3) Pfam (PF00380)	Escherichia coli
10	J, SC (AJ, DJ)	30S ribosomal protein S10	polymer	103	11755.6	2	UniProt (P0A7R5) Pfam (PF00338)	Escherichia coli
11	K, TC (AK, DK)	30S ribosomal protein S11	polymer	129	13871.0	2	UniProt (P0A7R9) Pfam (PF00411)	Escherichia coli
12	L, UC (AL, DL)	30S ribosomal protein S12	polymer	124	13768.2	2	UniProt (P0A7S3) Pfam (PF00164)	Escherichia coli
13	M, VC (AM, DM)	30S ribosomal protein S13	polymer	118	13128.5	2	UniProt (P0A7S9) Pfam (PF00416)	Escherichia coli
14	N, WC (AN, DN)	30S ribosomal protein S14	polymer	101	11606.6	2	UniProt (P0AG59) Pfam (PF00253)	Escherichia coli
15	O, XC (AO, DO)	30S ribosomal protein S15	polymer	89	10319.9	2	UniProt (C6UUI7)	Escherichia coli
16	P, YC (AP, DP)	30S ribosomal protein S16	polymer	82	9207.6	2	UniProt (P0A7T3) Pfam (PF00886)	Escherichia coli
17	Q, ZC (AQ, DQ)	30S ribosomal protein S17	polymer	84	9724.5	2	UniProt (P0AG63) Pfam (PF00366)	Escherichia coli
18	AD, R (AR, DR)	30S ribosomal protein S18	polymer	75	9005.5	2	UniProt (P0A7T7) Pfam (PF01084)	Escherichia coli
19	BD, S (AS, DS)	30S ribosomal protein S19	polymer	92	10455.4	2	UniProt (P0A7U3) Pfam (PF00203)	Escherichia coli
20	CD, T (AT, DT)	30S ribosomal protein S20	polymer	87	9708.5	2	UniProt (P0A7U7) Pfam (PF01649)	Escherichia coli
21	DD, U (AU, DU)	30S ribosomal protein S21	polymer	71	8524.0	2	UniProt (P68679) Pfam (PF01165)	Escherichia coli
22	V (AV)	Ribosome-recycling factor	polymer	185	20671.6	1	UniProt (P0A805) Pfam (PF01765)	Escherichia coli	RRF,Ribosome-releasing factor
23	ED, W (AW, DV)	Messenger RNA	polymer	16	5170.2	2		Enterobacteria phage L1
24	FD, X (AX, DW)	Phenylalanine specific transfer RNA, tRNA-Phe	polymer	76	24485.5	2	GenBank (359330873)	Escherichia coli str. K-12 substr. MDS42
25	EB, Y (BA, CA)	23S ribosomal RNA	polymer	2904	941612.4	2	GenBank (359330873)	Escherichia coli str. K-12 substr. MDS42
26	FB, Z (BB, CB)	5S ribosomal RNA	polymer	120	38790.1	2	GenBank (359330873)	Escherichia coli str. K-12 substr. MDS42
27	AA, GB (BC, CC)	50S ribosomal protein L2	polymer	273	29923.6	2	UniProt (P60422) Pfam (PF00181) Pfam (PF03947)	Escherichia coli
28	BA, HB (BD, CD)	50S ribosomal protein L3	polymer	209	22277.5	2	UniProt (P60438) Pfam (PF00297)	Escherichia coli
29	CA, IB (BE, CE)	50S ribosomal protein L4	polymer	201	22121.6	2	UniProt (P60723) Pfam (PF00573)	Escherichia coli
30	DA, JB (BF, CF)	50S ribosomal protein L5	polymer	179	20333.6	2	UniProt (P62399) Pfam (PF00281) Pfam (PF00673)	Escherichia coli
31	EA, KB (BG, CG)	50S ribosomal protein L6	polymer	177	18932.8	2	UniProt (P0AG55) Pfam (PF00347)	Escherichia coli
32	FA, LB (BH, CH)	50S ribosomal protein L9	polymer	149	15789.0	2	UniProt (P0A7R1) Pfam (PF01281) Pfam (PF03948)	Escherichia coli
33	GA, MB (BI, CI)	50S ribosomal protein L11	polymer	142	14894.4	2	UniProt (P0A7J7) Pfam (PF03946) Pfam (PF00298)	Escherichia coli
34	HA, NB (BJ, CJ)	50S ribosomal protein L13	polymer	142	16050.6	2	UniProt (P0AA10) Pfam (PF00572)	Escherichia coli
35	IA, OB (BK, CK)	50S ribosomal protein L14	polymer	123	13565.1	2	UniProt (P0ADY3) Pfam (PF00238)	Escherichia coli
36	JA, PB (BL, CL)	50S ribosomal protein L15	polymer	144	15008.5	2	UniProt (P02413) Pfam (PF00828)	Escherichia coli
37	KA, QB (BM, CM)	50S ribosomal protein L16	polymer	136	15312.3	2	UniProt (P0ADY7) Pfam (PF00252)	Escherichia coli
38	LA, RB (BN, CN)	50S ribosomal protein L17	polymer	127	14393.7	2	UniProt (P0AG44) Pfam (PF01196)	Escherichia coli
39	MA, SB (BO, CO)	50S ribosomal protein L18	polymer	117	12794.7	2	UniProt (P0C018) Pfam (PF00861)	Escherichia coli
40	NA, TB (BP, CP)	50S ribosomal protein L19	polymer	115	13159.3	2	UniProt (P0A7K6) Pfam (PF01245)	Escherichia coli
41	OA, UB (BQ, CQ)	50S ribosomal protein L20	polymer	118	13528.0	2	UniProt (P0A7L3) Pfam (PF00453)	Escherichia coli
42	PA, VB (BR, CR)	50S ribosomal protein L21	polymer	103	11586.4	2	UniProt (P0AG48) Pfam (PF00829)	Escherichia coli
43	QA, WB (BS, CS)	50S ribosomal protein L22	polymer	110	12253.4	2	UniProt (P61175) Pfam (PF00237)	Escherichia coli
44	RA, XB (BT, CT)	50S ribosomal protein L23	polymer	100	11222.2	2	UniProt (P0ADZ0) Pfam (PF00276)	Escherichia coli
45	SA, YB (BU, CU)	50S ribosomal protein L24	polymer	104	11339.3	2	UniProt (P60624) Pfam (PF00467) Pfam (PF17136)	Escherichia coli
46	TA, ZB (BV, CV)	50S ribosomal protein L25	polymer	94	10713.5	2	UniProt (P68919) Pfam (PF01386)	Escherichia coli
47	AC, UA (BW, CW)	50S ribosomal protein L27	polymer	85	9146.5	2	UniProt (P0A7L8) Pfam (PF01016)	Escherichia coli
48	BC, VA (BX, CX)	50S ribosomal protein L28	polymer	78	9027.6	2	UniProt (P0A7M2) Pfam (PF00830)	Escherichia coli
49	CC, WA (BY, CY)	50S ribosomal protein L29	polymer	63	7286.5	2	UniProt (P0A7M6) Pfam (PF00831)	Escherichia coli
50	DC, XA (BZ, CZ)	50S ribosomal protein L30	polymer	59	6554.8	2	UniProt (P0AG51) Pfam (PF00327)	Escherichia coli
51	EC, YA (B0, C0)	50S ribosomal protein L32	polymer	57	6463.4	2	UniProt (P0A7N4) Pfam (PF01783)	Escherichia coli
52	FC, ZA (B1, C1)	50S ribosomal protein L33	polymer	55	6388.6	2	UniProt (P0A7N9) Pfam (PF00471)	Escherichia coli
53	AB, GC (B2, C2)	50S ribosomal protein L34	polymer	46	5397.5	2	UniProt (P0A7P5) Pfam (PF00468)	Escherichia coli
54	BB, HC (B3, C3)	50S ribosomal protein L35	polymer	65	7313.0	2	UniProt (P0A7Q1) Pfam (PF01632)	Escherichia coli	Ribosomal protein A
55	CB, IC (B4, C4)	50S ribosomal protein L36	polymer	38	4377.4	2	UniProt (P0A7Q6) Pfam (PF00444)	Escherichia coli	Ribosomal protein B
56	DB (B5)	50S ribosomal protein L1	polymer	228	24741.5	1	UniProt (Q5SLP7) Pfam (PF00687)	Thermus thermophilus
57	AE, AF, AG, AH, AI... (AA, AN, BA, CA, DA...)	MAGNESIUM ION	non-polymer		24.3	495	Chemie (MG)
58	BG, CG, DG, EG, FG... (BA, CA, DA, AA)	PAROMOMYCIN	non-polymer		615.6	13	Chemie (PAR)
59	PU, VN (C4, B4)	ZINC ION	non-polymer		65.4	2	Chemie (ZN)
60	AX, AY, BX, BY, CX... (AT, DA, BA, DD, BB...)	water	water		18.0	1727	Chemie (HOH)

Contents of the asymmetric unit

Polymers	Number of chains	110
	Total formula weight	4398912.7
Non-Polymers*	Number of molecules	510
	Total formula weight	20165.0
All*	Total formula weight	4419077.7

*Water molecules are not included.