5MDY

Structure of ArfA and TtRF2 bound to the 70S ribosome (pre-accommodated state)

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	1	23S ribosomal RNA	polymer	2904	941832.6	1	GenBank (802133627)	Escherichia coli K-12
2	2	16S ribosomal RNA	polymer	1534	497406.0	1	GenBank (802133627)	Escherichia coli K-12
3	3	5S ribosomal RNA	polymer	120	38790.1	1	GenBank (1028480521)	Escherichia coli K-12
4	4	mRNA	polymer	18	5922.6	1		Escherichia coli
5	5	fMet-NH-tRNA(fMet)	polymer	78	24966.1	1		Escherichia coli
6	6	Alternative ribosome-rescue factor A	polymer	61	7117.2	1	UniProt (P36675) Pfam (PF03889) In PDB	Escherichia coli K-12
7	7	Peptide chain release factor 2	polymer	378	42793.5	1	UniProt (Q5SM01) Pfam (PF03462) Pfam (PF00472) In PDB	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
8	B	50S ribosomal protein L2	polymer	273	29923.6	1	UniProt (P60422) Pfam (PF00181) Pfam (PF03947) In PDB	Escherichia coli K-12
9	C	50S ribosomal protein L3	polymer	209	22277.5	1	UniProt (P60438) Pfam (PF00297) In PDB	Escherichia coli K-12
10	D	50S ribosomal protein L4	polymer	201	22121.6	1	UniProt (P60723) Pfam (PF00573) In PDB	Escherichia coli K-12
11	E	50S ribosomal protein L5	polymer	179	20333.6	1	UniProt (P62399) Pfam (PF00281) Pfam (PF00673) In PDB	Escherichia coli K-12
12	F	50S ribosomal protein L6	polymer	177	18932.8	1	UniProt (P0AG55) Pfam (PF00347) In PDB	Escherichia coli K-12
13	G	50S ribosomal protein L9	polymer	149	15789.0	1	UniProt (P0A7R1) Pfam (PF01281) Pfam (PF03948) In PDB	Escherichia coli K-12
14	H	50S ribosomal protein L10	polymer	165	17736.6	1	UniProt (P0A7J3) Pfam (PF00466) In PDB	Escherichia coli K-12	50S ribosomal protein L8
15	I	50S ribosomal protein L11	polymer	142	14894.4	1	UniProt (P0A7J7) Pfam (PF03946) Pfam (PF00298) In PDB	Escherichia coli K-12
16	J	50S ribosomal protein L13	polymer	142	16050.6	1	UniProt (P0AA10) Pfam (PF00572) In PDB	Escherichia coli K-12
17	K	50S ribosomal protein L14	polymer	123	13565.1	1	UniProt (P0ADY3) Pfam (PF00238) In PDB	Escherichia coli K-12
18	L	50S ribosomal protein L15	polymer	144	15008.5	1	UniProt (P02413) Pfam (PF00828) In PDB	Escherichia coli K-12
19	M	50S ribosomal protein L16	polymer	136	15312.3	1	UniProt (P0ADY7) Pfam (PF00252) In PDB	Escherichia coli K-12
20	N	50S ribosomal protein L17	polymer	127	14393.7	1	UniProt (P0AG44) Pfam (PF01196) In PDB	Escherichia coli K-12
21	O	50S ribosomal protein L18	polymer	117	12794.7	1	UniProt (P0C018) Pfam (PF00861) In PDB	Escherichia coli K-12
22	P	50S ribosomal protein L19	polymer	115	13159.3	1	UniProt (P0A7K6) Pfam (PF01245) In PDB	Escherichia coli K-12
23	Q	50S ribosomal protein L20	polymer	118	13528.0	1	UniProt (P0A7L3) Pfam (PF00453) In PDB	Escherichia coli K-12
24	R	50S ribosomal protein L21	polymer	103	11586.4	1	UniProt (P0AG48) Pfam (PF00829) In PDB	Escherichia coli K-12
25	S	50S ribosomal protein L22	polymer	110	12253.4	1	UniProt (P61175) Pfam (PF00237) In PDB	Escherichia coli K-12
26	T	50S ribosomal protein L23	polymer	100	11222.2	1	UniProt (P0ADZ0) Pfam (PF00276) In PDB	Escherichia coli K-12
27	U	50S ribosomal protein L24	polymer	104	11339.3	1	UniProt (P60624) Pfam (PF00467) Pfam (PF17136) In PDB	Escherichia coli K-12
28	V	50S ribosomal protein L25	polymer	94	10713.5	1	UniProt (P68919) Pfam (PF01386) In PDB	Escherichia coli K-12
29	W	50S ribosomal protein L27	polymer	85	9146.5	1	UniProt (P0A7L8) Pfam (PF01016) In PDB	Escherichia coli K-12
30	X	50S ribosomal protein L28	polymer	78	9027.6	1	UniProt (P0A7M2) Pfam (PF00830) In PDB	Escherichia coli K-12
31	Y	50S ribosomal protein L29	polymer	63	7286.5	1	UniProt (P0A7M6) Pfam (PF00831) In PDB	Escherichia coli K-12
32	Z	50S ribosomal protein L30	polymer	59	6554.8	1	UniProt (P0AG51) Pfam (PF00327) In PDB	Escherichia coli K-12
33	a	50S ribosomal protein L31	polymer	70	7887.1	1	UniProt (P0A7M9) Pfam (PF01197) In PDB	Escherichia coli K-12
34	b	50S ribosomal protein L32	polymer	57	6463.4	1	UniProt (P0A7N4) Pfam (PF01783) In PDB	Escherichia coli K-12
35	c	50S ribosomal protein L33	polymer	55	6388.6	1	UniProt (P0A7N9) Pfam (PF00471) In PDB	Escherichia coli K-12
36	d	50S ribosomal protein L34	polymer	46	5397.5	1	UniProt (P0A7P5) Pfam (PF00468) In PDB	Escherichia coli K-12
37	e	50S ribosomal protein L35	polymer	65	7313.0	1	UniProt (P0A7Q1) Pfam (PF01632) In PDB	Escherichia coli K-12	Ribosomal protein A
38	f	50S ribosomal protein L36	polymer	38	4377.4	1	UniProt (P0A7Q6) Pfam (PF00444) In PDB	Escherichia coli K-12	Ribosomal protein B
39	g	30S ribosomal protein S2	polymer	241	26781.7	1	UniProt (P0A7V0) Pfam (PF00318) In PDB	Escherichia coli K-12
40	h	30S ribosomal protein S3	polymer	233	26031.3	1	UniProt (P0A7V3) Pfam (PF07650) Pfam (PF00189) In PDB	Escherichia coli K-12
41	i	30S ribosomal protein S4	polymer	206	23514.2	1	UniProt (P0A7V8) Pfam (PF00163) Pfam (PF01479) In PDB	Escherichia coli K-12
42	j	30S ribosomal protein S5	polymer	167	17629.4	1	UniProt (P0A7W1) Pfam (PF00333) Pfam (PF03719) In PDB	Escherichia coli K-12
43	k	30S ribosomal protein S6	polymer	135	15727.5	1	UniProt (P02358) Pfam (PF01250) In PDB	Escherichia coli K-12
44	l	30S ribosomal protein S7	polymer	179	20055.2	1	UniProt (P02359) Pfam (PF00177) In PDB	Escherichia coli K-12
45	m	30S ribosomal protein S8	polymer	130	14146.6	1	UniProt (P0A7W7) Pfam (PF00410) In PDB	Escherichia coli K-12
46	n	30S ribosomal protein S9	polymer	130	14886.3	1	UniProt (P0A7X3) Pfam (PF00380) In PDB	Escherichia coli K-12
47	o	30S ribosomal protein S10	polymer	103	11755.6	1	UniProt (P0A7R5) Pfam (PF00338) In PDB	Escherichia coli K-12
48	p	30S ribosomal protein S11	polymer	129	13871.0	1	UniProt (P0A7R9) Pfam (PF00411) In PDB	Escherichia coli K-12
49	q	30S ribosomal protein S12	polymer	124	13814.2	1	UniProt (P0A7S3) Pfam (PF00164) In PDB	Escherichia coli K-12
50	r	30S ribosomal protein S13	polymer	118	13128.5	1	UniProt (P0A7S9) Pfam (PF00416) In PDB	Escherichia coli K-12
51	s	30S ribosomal protein S14	polymer	101	11606.6	1	UniProt (P0AG59) Pfam (PF00253) In PDB	Escherichia coli K-12
52	t	30S ribosomal protein S15	polymer	89	10290.8	1	UniProt (P0ADZ4) Pfam (PF00312) In PDB	Escherichia coli K-12
53	u	30S ribosomal protein S16	polymer	82	9207.6	1	UniProt (P0A7T3) Pfam (PF00886) In PDB	Escherichia coli K-12
54	v	30S ribosomal protein S17	polymer	84	9724.5	1	UniProt (P0AG63) Pfam (PF00366) In PDB	Escherichia coli K-12
55	w	30S ribosomal protein S18	polymer	75	9005.5	1	UniProt (P0A7T7) Pfam (PF01084) In PDB	Escherichia coli K-12
56	x	30S ribosomal protein S19	polymer	92	10455.4	1	UniProt (P0A7U3) Pfam (PF00203) In PDB	Escherichia coli K-12
57	y	30S ribosomal protein S20	polymer	87	9708.5	1	UniProt (P0A7U7) Pfam (PF01649) In PDB	Escherichia coli K-12
58	z	30S ribosomal protein S21	polymer	71	8524.0	1	UniProt (P68679) Pfam (PF01165) In PDB	Escherichia coli K-12
59	1, 2, 3, 5, b...	MAGNESIUM ION	non-polymer		24.3	450	Chemie (MG)
60	5	N-FORMYLMETHIONINE	non-polymer		177.2	1	Chemie (FME)
61	a, f	ZINC ION	non-polymer		65.4	2	Chemie (ZN)
62		water	water		18.0	3	Chemie (HOH)

Sequence modifications

1: 1 - 2904 (GenBank: 802133627)

PDB	External Database	Details
A 887	U 2724602	conflict

6: 1 - 60 (UniProt: P36675)

PDB	External Database	Details
His 0	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	58
	Total formula weight	2251470.4
Non-Polymers*	Number of molecules	453
	Total formula weight	11245.3
All*	Total formula weight	2262715.7

*Water molecules are not included.