5J4D

E. coli release factor 1 bound to the 70S ribosome in response to a pseudouridylated stop codon

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, EB (A, FB)	16S ribosomal RNA	polymer	1507	489561.2	2	GenBank (AE017221.1)	Thermus thermophilus HB27
2	B, FB (B, GB)	25S ribosomal RNA	polymer	2880	936785.6	2	GenBank (46197919)	Thermus thermophilus HB27
3	C, GB (C, HB)	5S ribosomal RNA	polymer	120	38882.2	2	GenBank (46197919)	Thermus thermophilus HB27
4	D, HB, IA, MC (D, IA, IB, NC)	tRNA	polymer	77	24846.9	4	GenBank (CP010445.1)	Escherichia coli K-12
5	E, IB (E, JB)	50S ribosomal protein L2	polymer	275	30401.4	2	UniProt (Q72I07) Pfam (PF00181) Pfam (PF03947)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
6	F, JB (F, KB)	50S ribosomal protein L3	polymer	206	22450.2	2	UniProt (Q72I04) Pfam (PF00297)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
7	G, KB (G, LB)	50S ribosomal protein L4	polymer	205	22744.3	2	UniProt (Q72I05) Pfam (PF00573)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
8	H, LB (H, MB)	50S ribosomal protein L5	polymer	182	21075.6	2	UniProt (Q72I16) Pfam (PF00281) Pfam (PF00673)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
9	I, MB (I, NB)	50S ribosomal protein L6	polymer	180	19568.9	2	UniProt (Q72I19) Pfam (PF00347)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
10	J, NB (J, OB)	50S ribosomal protein L9	polymer	148	16436.2	2	UniProt (Q72GV5) Pfam (PF01281) Pfam (PF03948)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
11	K, OB (K, PB)	50S ribosomal protein L13	polymer	140	15927.9	2	UniProt (Q72IN1) Pfam (PF00572)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
12	L, PB (L, QB)	50S ribosomal protein L14	polymer	122	13309.6	2	UniProt (Q72I14) Pfam (PF00238)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
13	M, QB (M, RB)	50S ribosomal protein L15	polymer	150	16319.1	2	UniProt (Q72I23) Pfam (PF00828)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
14	N, RB (N, SB)	50S ribosomal protein L16	polymer	141	15977.9	2	UniProt (Q72I11) Pfam (PF00252)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
15	O, SB (O, TB)	50S ribosomal protein L17	polymer	118	13750.1	2	UniProt (Q72I33) Pfam (PF01196)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
16	P, TB (P, UB)	50S ribosomal protein L18	polymer	112	12639.8	2	UniProt (Q72I20) Pfam (PF00861)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
17	Q, UB (Q, VB)	50S ribosomal protein L19	polymer	146	17217.9	2	UniProt (Q72JU9) Pfam (PF01245)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
18	R, VB (R, WB)	50S ribosomal protein L20	polymer	118	13779.3	2	UniProt (Q72L76) Pfam (PF00453)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
19	S, WB (S, XB)	50S ribosomal protein L21	polymer	101	11069.2	2	UniProt (Q72HR2) Pfam (PF00829)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
20	T, XB (T, YB)	50S ribosomal protein L22	polymer	113	12808.1	2	UniProt (Q72I09) Pfam (PF00237)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
21	U, YB (U, ZB)	50S ribosomal protein L23	polymer	96	10759.8	2	UniProt (Q72I06) Pfam (PF00276)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
22	V, ZB (V, AC)	50S ribosomal protein L24	polymer	110	12085.6	2	UniProt (Q72I15) Pfam (PF00467) Pfam (PF17136)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
23	AC, W (W, BC)	50S ribosomal protein L25	polymer	206	23238.6	2	UniProt (Q72IA7) Pfam (PF01386) Pfam (PF14693)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)	General stress protein CTC
24	BC, X (X, CC)	50S ribosomal protein L27	polymer	85	9529.1	2	UniProt (P60493) Pfam (PF01016)	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
25	CC, Y (Y, DC)	50S ribosomal protein L28	polymer	98	11032.2	2	UniProt (Q72G84) Pfam (PF00830)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
26	DC, Z (Z, EC)	50S ribosomal protein L29	polymer	72	8670.3	2	UniProt (Q72I12) Pfam (PF00831)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
27	AA, EC (AA, FC)	50S ribosomal protein L30	polymer	60	6799.1	2	UniProt (Q72I22) Pfam (PF00327)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
28	BA, FC (BA, GC)	50S ribosomal protein L31	polymer	71	8300.5	2	UniProt (Q72JR0) Pfam (PF01197)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
29	CA, GC (CA, HC)	50S ribosomal protein L32	polymer	60	6734.1	2	UniProt (P62652) Pfam (PF01783)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
30	DA, HC (DA, IC)	50S ribosomal protein L33	polymer	54	6632.9	2	UniProt (Q72GW3) Pfam (PF00471)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
31	EA, IC (EA, JC)	50S ribosomal protein L34	polymer	49	6132.4	2	UniProt (P80340) Pfam (PF00468)	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
32	FA, JC (FA, KC)	50S ribosomal protein L35	polymer	65	7506.2	2	UniProt (Q72L77) Pfam (PF01632)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
33	GA, KC (GA, LC)	50S ribosomal protein L36	polymer	37	4435.4	2	UniProt (Q72I28) Pfam (PF00444)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
34	HA, LC (HA, MC)	mRNA	polymer	27	8862.5	2		synthetic construct
35	JA, NC (JA, OC)	Peptide chain release factor 1	polymer	368	41644.4	2	UniProt (P0A7I0) Pfam (PF03462) Pfam (PF00472)	Escherichia coli (strain K12)	RF-1
36	KA, OC (KA, PC)	30S ribosomal protein S2	polymer	256	29317.7	2	UniProt (P62662) Pfam (PF00318)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
37	LA, PC (LA, QC)	30S ribosomal protein S3	polymer	239	26751.1	2	UniProt (P62663) Pfam (PF07650) Pfam (PF00189)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
38	MA, QC (MA, RC)	30S ribosomal protein S4	polymer	209	24373.4	2	UniProt (P62664) Pfam (PF00163) Pfam (PF01479)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
39	NA, RC (NA, SC)	30S ribosomal protein S5	polymer	162	17583.4	2	UniProt (P62665) Pfam (PF00333) Pfam (PF03719)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
40	OA, SC (OA, TC)	30S ribosomal protein S6	polymer	101	11988.8	2	UniProt (P62666) Pfam (PF01250)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
41	PA, TC (PA, UC)	30S ribosomal protein S7	polymer	156	18051.0	2	UniProt (P62667) Pfam (PF00177)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
42	QA, UC (QA, VC)	30S ribosomal protein S8	polymer	138	15868.6	2	UniProt (P62668) Pfam (PF00410)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
43	RA, VC (RA, WC)	30S ribosomal protein S9	polymer	128	14429.7	2	UniProt (P62669) Pfam (PF00380)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
44	SA, WC (SA, XC)	30S ribosomal protein S10	polymer	105	11955.0	2	UniProt (P62653) Pfam (PF00338)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
45	TA, XC (TA, YC)	30S ribosomal protein S11	polymer	129	13737.9	2	UniProt (P62654) Pfam (PF00411)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
46	UA, YC (UA, ZC)	30S ribosomal protein S12	polymer	132	14683.5	2	UniProt (P61941) Pfam (PF00164)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
47	VA, ZC (VA, AD)	30S ribosomal protein S13	polymer	126	14338.9	2	UniProt (P62655) Pfam (PF00416)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
48	AD, WA (WA, BD)	30S ribosomal protein S14 type Z	polymer	61	7158.7	2	UniProt (P62656) Pfam (PF00253)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
49	BD, XA (XA, CD)	30S ribosomal protein S15	polymer	89	10578.4	2	UniProt (P62657) Pfam (PF00312)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
50	CD, YA (YA, DD)	30S ribosomal protein S16	polymer	88	10410.0	2	UniProt (P62238) Pfam (PF00886)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
51	DD, ZA (ZA, ED)	30S ribosomal protein S17	polymer	105	12324.7	2	UniProt (P62658) Pfam (PF00366)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
52	AB, ED (AB, FD)	30S ribosomal protein S18	polymer	88	10258.3	2	UniProt (P62659) Pfam (PF01084)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
53	BB, FD (BB, GD)	30S ribosomal protein S19	polymer	93	10605.5	2	UniProt (P62660) Pfam (PF00203)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
54	CB, GD (CB, HD)	30S ribosomal protein S20	polymer	106	11722.1	2	UniProt (P62661) Pfam (PF01649)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
55	DB, HD (DB, ID)	30S ribosomal protein Thx	polymer	27	3350.0	2	UniProt (P62613) Pfam (PF17070)	Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
56	AAA, AAB, AAC, AAD, ABA... (B, C, GB, F, I...)	MAGNESIUM ION	non-polymer		24.3	2893	Chemie (MG)
57	BID, HGB, MEB, PFB, PHD... (LC, GA, V, BA, GC...)	ZINC ION	non-polymer		65.4	10	Chemie (ZN)

Sequence modifications

JA, OC: 1 - 360 (UniProt: P0A7I0)

PDB	External Database	Details
Leu 361	-	expression tag
Glu 362	-	expression tag
His 363	-	expression tag
His 364	-	expression tag
His 365	-	expression tag
His 366	-	expression tag
His 367	-	expression tag
His 368	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	112
	Total formula weight	4504495.8
Non-Polymers*	Number of molecules	2903
	Total formula weight	70968.5
All*	Total formula weight	4575464.2

*Water molecules are not included.