2UXD

Crystal structure of an extended tRNA anticodon stem loop in complex with its cognate mRNA CGGG in the context of the Thermus thermophilus 30S subunit.

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A	16S RIBOSOMAL RNA	polymer	1523	494287.5	1		THERMUS THERMOPHILUS
2	B	RIBOSOMAL PROTEIN S2	polymer	256	29317.7	1	UniProt (P80371) Pfam (PF00318) In PDB	THERMUS THERMOPHILUS
3	C	RIBOSOMAL PROTEIN S3	polymer	239	26751.1	1	UniProt (P80372) Pfam (PF07650) Pfam (PF00189) In PDB	THERMUS THERMOPHILUS
4	D	RIBOSOMAL PROTEIN S4	polymer	209	24373.4	1	UniProt (P80373) Pfam (PF00163) Pfam (PF01479) In PDB	THERMUS THERMOPHILUS
5	E	RIBOSOMAL PROTEIN S5	polymer	162	17583.4	1	UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) In PDB	THERMUS THERMOPHILUS
6	F	RIBOSOMAL PROTEIN S6	polymer	101	11988.8	1	UniProt (Q5SLP8) Pfam (PF01250) In PDB	THERMUS THERMOPHILUS
7	G	RIBOSOMAL PROTEIN S7	polymer	156	18051.0	1	UniProt (P17291) Pfam (PF00177) In PDB	THERMUS THERMOPHILUS
8	H	RIBOSOMAL PROTEIN S8	polymer	138	15868.6	1	UniProt (Q5SHQ2) Pfam (PF00410) UniProt (by SIFTS) (P0DOY9) In PDB	THERMUS THERMOPHILUS
9	I	RIBOSOMAL PROTEIN S9	polymer	128	14429.7	1	UniProt (P80374) Pfam (PF00380) In PDB	THERMUS THERMOPHILUS
10	J	RIBOSOMAL PROTEIN S10	polymer	105	11955.0	1	UniProt (Q5SHN7) Pfam (PF00338) In PDB	THERMUS THERMOPHILUS
11	K	RIBOSOMAL PROTEIN S11	polymer	129	13737.9	1	UniProt (P80376) Pfam (PF00411) In PDB	THERMUS THERMOPHILUS
12	L	RIBOSOMAL PROTEIN S12	polymer	135	14920.8	1	UniProt (Q5SHN3) Pfam (PF00164) In PDB	THERMUS THERMOPHILUS
13	M	RIBOSOMAL PROTEIN S13	polymer	126	14338.9	1	UniProt (P80377) Pfam (PF00416) In PDB	THERMUS THERMOPHILUS
14	N	RIBOSOMAL PROTEIN S14	polymer	61	7158.7	1	UniProt (Q5SHQ1) Pfam (PF00253) UniProt (by SIFTS) (P0DOY6) In PDB	THERMUS THERMOPHILUS
15	O	RIBOSOMAL PROTEIN S15	polymer	89	10578.4	1	UniProt (Q5SJ76) Pfam (PF00312) In PDB	THERMUS THERMOPHILUS
16	P	RIBOSOMAL PROTEIN S16	polymer	88	10410.0	1	UniProt (Q5SJH3) Pfam (PF00886) In PDB	THERMUS THERMOPHILUS
17	Q	RIBOSOMAL PROTEIN S17	polymer	105	12324.7	1	UniProt (Q5SHP7) Pfam (PF00366) UniProt (by SIFTS) (P0DOY7) In PDB	THERMUS THERMOPHILUS
18	R	RIBOSOMAL PROTEIN S18	polymer	88	10258.3	1	UniProt (Q5SLQ0) Pfam (PF01084) In PDB	THERMUS THERMOPHILUS
19	S	RIBOSOMAL PROTEIN S19	polymer	93	10605.5	1	UniProt (Q5SHP2) Pfam (PF00203) In PDB	THERMUS THERMOPHILUS
20	T	RIBOSOMAL PROTEIN S20	polymer	106	11722.1	1	UniProt (P80380) Pfam (PF01649) In PDB	THERMUS THERMOPHILUS
21	V	RIBOSOMAL PROTEIN THX	polymer	27	3350.0	1	UniProt (Q5SIH3) Pfam (PF17070) In PDB	THERMUS THERMOPHILUS
22	X	ANTICODON STEM-LOOP OF TRANSFER RNA WITH ANTICODON CCCG	polymer	4	1295.8	1		synthetic construct
23	Y	A-SITE MESSENGER RNA FRAGMENT CGGG	polymer	18	5723.5	1		synthetic construct
24	A	PAROMOMYCIN	non-polymer		615.6	1	Chemie (PAR)
25	G	MAGNESIUM ION	non-polymer		24.3	70	Chemie (MG)
26	G	POTASSIUM ION	non-polymer		39.1	8	Chemie (K)
27	G	ZINC ION	non-polymer		65.4	2	Chemie (ZN)

Sequence modifications

B: 1 - 1 (PDB: 2UXD)
B: 2 - 256 (UniProt: P80371)
C: 1 - 1 (PDB: 2UXD)
C: 2 - 239 (UniProt: P80372)
D: 1 - 1 (PDB: 2UXD)
D: 2 - 209 (UniProt: P80373)
E: 1 - 1 (PDB: 2UXD)
E: 2 - 162 (UniProt: Q5SHQ5)
G: 1 - 1 (PDB: 2UXD)
G: 2 - 156 (UniProt: P17291)
I: 1 - 128 (UniProt: P80374)

PDB	External Database	Details
Arg 58	His 58	conflict

J: 1 - 1 (PDB: 2UXD)
J: 2 - 105 (UniProt: Q5SHN7)
K: 1 - 1 (PDB: 2UXD)
K: 2 - 129 (UniProt: P80376)
L: 1 - 4 (PDB: 2UXD)
L: 5 - 135 (UniProt: Q5SHN3)
M: 1 - 1 (PDB: 2UXD)
M: 2 - 126 (UniProt: P80377)
N: 1 - 1 (PDB: 2UXD)
N: 2 - 61 (UniProt: Q5SHQ1)
O: 1 - 1 (PDB: 2UXD)
O: 2 - 89 (UniProt: Q5SJ76)
Q: 1 - 1 (PDB: 2UXD)
Q: 2 - 105 (UniProt: Q5SHP7)

PDB	External Database	Details
Gln 96	Glu 95	conflict

R: 1 - 1 (PDB: 2UXD)
R: 2 - 88 (UniProt: Q5SLQ0)
S: 1 - 1 (PDB: 2UXD)
S: 2 - 93 (UniProt: Q5SHP2)
T: 1 - 1 (PDB: 2UXD)
T: 2 - 106 (UniProt: P80380)

PDB	External Database	Details
Val 41	Ile 40	conflict

V: 1 - 1 (PDB: 2UXD)
V: 2 - 27 (UniProt: Q5SIH3)

Contents of the asymmetric unit

Polymers	Number of chains	23
	Total formula weight	791030.5
Non-Polymers*	Number of molecules	81
	Total formula weight	2760.6
All*	Total formula weight	793791.1

*Water molecules are not included.