8FZF
Cryo-EM structure of an E. coli rotated ribosome complex bound with RF3-ppGpp and p/E-tRNAPhe (Composite state I-C)
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 | 16S Ribosomal RNA | polymer | 1542 | 499873.4 | 1 | GenBank (1758835854) | Escherichia coli | |
2 | b | 30S ribosomal protein S2 | polymer | 241 | 26795.7 | 1 | UniProt (J7QM75) Pfam (PF00318) In PDB | Escherichia coli | |
3 | c | 30S ribosomal protein S3 | polymer | 233 | 26031.3 | 1 | UniProt (B7MCS9) Pfam (PF07650) Pfam (PF00189) In PDB | Escherichia coli | |
4 | d | 30S ribosomal protein S4 | polymer | 206 | 23514.2 | 1 | UniProt (P0A7V8) Pfam (PF00163) Pfam (PF01479) In PDB | Escherichia coli | |
5 | e | 30S ribosomal protein S5 | polymer | 167 | 17629.4 | 1 | UniProt (P0A7W1) Pfam (PF00333) Pfam (PF03719) In PDB | Escherichia coli | |
6 | f | 30S ribosomal protein S6 | polymer | 131 | 15211.1 | 1 | UniProt (C3SFQ7) Pfam (PF01250) In PDB | Escherichia coli | |
7 | g | 30S ribosomal protein S7 | polymer | 156 | 17637.4 | 1 | UniProt (P02359) Pfam (PF00177) In PDB | Escherichia coli | Small ribosomal subunit protein uS7 |
8 | h | 30S ribosomal protein S8 | polymer | 130 | 14146.6 | 1 | UniProt (D7XKZ3) In PDB | Escherichia coli | |
9 | i | Small ribosomal subunit protein uS9 | polymer | 130 | 14886.3 | 1 | UniProt (C3SRY2) Pfam (PF00380) In PDB | Escherichia coli | |
10 | j | 30S ribosomal protein S10 | polymer | 103 | 11755.6 | 1 | UniProt (V0ANK5) In PDB | Escherichia coli | |
11 | k | 30S ribosomal protein S11 | polymer | 129 | 13872.0 | 1 | UniProt (A0A0H3PWX2) Pfam (PF00411) In PDB | Escherichia coli | |
12 | l | 30S ribosomal protein S12 | polymer | 124 | 13814.2 | 1 | UniProt (A0A0F1AUC4) Pfam (PF00164) In PDB | Escherichia coli | |
13 | m | 30S ribosomal protein S13 | polymer | 118 | 13128.5 | 1 | UniProt (A0A7U9IV78) Pfam (PF00416) In PDB | Escherichia coli | |
14 | n | Small ribosomal subunit protein uS14 | polymer | 101 | 11606.6 | 1 | UniProt (A0A2X1PQW4) Pfam (PF00253) In PDB | Escherichia coli | |
15 | o | Small ribosomal subunit protein uS15 | polymer | 89 | 10290.8 | 1 | UniProt (C3SSQ7) Pfam (PF00312) In PDB | Escherichia coli | |
16 | p | 30S ribosomal protein S16 | polymer | 82 | 9207.6 | 1 | UniProt (C3SYP2) Pfam (PF00886) In PDB | Escherichia coli | |
17 | q | Small ribosomal subunit protein uS17 | polymer | 84 | 9724.5 | 1 | UniProt (C3SQY7) Pfam (PF00366) In PDB | Escherichia coli | |
18 | r | 30S ribosomal protein S18 | polymer | 75 | 9005.5 | 1 | UniProt (A0A0E2KXL3) Pfam (PF01084) In PDB | Escherichia coli | |
19 | s | 30S ribosomal protein S19 | polymer | 92 | 10455.4 | 1 | UniProt (S1EA57) In PDB | Escherichia coli | |
20 | t | 30S ribosomal protein S20 | polymer | 87 | 9708.5 | 1 | UniProt (C3TRH7) Pfam (PF01649) In PDB | Escherichia coli | |
21 | u | 30S ribosomal protein S21 | polymer | 71 | 8524.0 | 1 | UniProt (A0A0E2L2J1) Pfam (PF01165) In PDB | Escherichia coli | |
22 | x | p/E phenylalanyl-tRNA | polymer | 76 | 24644.9 | 1 | GenBank (1850831943) | Escherichia coli | |
23 | z | F-UAA mRNA | polymer | 21 | 6792.2 | 1 | Escherichia phage T4 | ||
24 | v | Peptide chain release factor RF3 | polymer | 529 | 59651.9 | 1 | UniProt (P0A7I4) Pfam (PF00009) Pfam (PF03144) Pfam (PF16658) In PDB | Escherichia coli K-12 | RF-3 |
25 | A | 23S Ribosomal RNA | polymer | 2904 | 941811.6 | 1 | Escherichia coli | ||
26 | B | 5S Ribosomal RNA | polymer | 120 | 38814.1 | 1 | GenBank (1817378070) | Escherichia coli | |
27 | C | 50S ribosomal protein L2 | polymer | 273 | 29923.6 | 1 | UniProt (P60422) Pfam (PF00181) Pfam (PF03947) In PDB | Escherichia coli | Large ribosomal subunit protein uL2 |
28 | D | 50S ribosomal protein L3 | polymer | 209 | 22291.6 | 1 | UniProt (U9Y9G2) In PDB | Escherichia coli | |
29 | E | 50S ribosomal protein L4 | polymer | 201 | 22121.6 | 1 | UniProt (A1AGK6) Pfam (PF00573) In PDB | Escherichia coli | |
30 | F | 50S ribosomal protein L5 | polymer | 179 | 20333.6 | 1 | UniProt (A0A140N5A3) Pfam (PF00281) Pfam (PF00673) In PDB | Escherichia coli | |
31 | G | 50S ribosomal protein L6 | polymer | 177 | 18932.8 | 1 | UniProt (C3SR17) Pfam (PF00347) In PDB | Escherichia coli | |
32 | I | 50S ribosomal protein L10 | polymer | 165 | 17736.6 | 1 | UniProt (P0A7J3) Pfam (PF00466) In PDB | Escherichia coli | 50S ribosomal protein L8,Large ribosomal subunit protein uL10 |
33 | J | 50S ribosomal protein L11 | polymer | 142 | 14894.4 | 1 | UniProt (P0A7J7) Pfam (PF03946) Pfam (PF00298) In PDB | Escherichia coli | Large ribosomal subunit protein uL11 |
34 | L | 50S ribosomal protein L13 | polymer | 142 | 16050.6 | 1 | UniProt (S1EW51) In PDB | Escherichia coli | |
35 | M | 50S ribosomal protein L14 | polymer | 123 | 13565.1 | 1 | UniProt (S1NW45) Pfam (PF00238) In PDB | Escherichia coli | |
36 | N | 50S ribosomal protein L15 | polymer | 144 | 14994.4 | 1 | UniProt (S5NDE9) Pfam (PF00828) In PDB | Escherichia coli | |
37 | O | 50S ribosomal protein L16 | polymer | 136 | 15329.3 | 1 | UniProt (E6BI61) In PDB | Escherichia coli | |
38 | P | Large ribosomal subunit protein bL17 | polymer | 127 | 14393.7 | 1 | UniProt (C3SR72) Pfam (PF01196) In PDB | Escherichia coli | |
39 | Q | 50S ribosomal protein L18 | polymer | 117 | 12794.7 | 1 | UniProt (S1E9N8) In PDB | Escherichia coli | |
40 | R | 50S ribosomal protein L19 | polymer | 115 | 13159.3 | 1 | UniProt (V0AJX1) In PDB | Escherichia coli | |
41 | S | 50S ribosomal protein L20 | polymer | 118 | 13528.0 | 1 | UniProt (B7MAS6) Pfam (PF00453) In PDB | Escherichia coli | |
42 | T | Ribosomal protein L21 | polymer | 103 | 11586.4 | 1 | UniProt (C3SSG2) Pfam (PF00829) In PDB | Escherichia coli | |
43 | U | 50S ribosomal protein L22 | polymer | 110 | 12253.4 | 1 | UniProt (P61175) Pfam (PF00237) In PDB | Escherichia coli | Large ribosomal subunit protein uL22 |
44 | V | 50S ribosomal protein L23 | polymer | 100 | 11222.2 | 1 | UniProt (U9Y6C4) In PDB | Escherichia coli | |
45 | W | 50S ribosomal protein L24 | polymer | 104 | 11339.3 | 1 | UniProt (A0A1X3KWX7) In PDB | Escherichia coli | |
46 | X | 50S ribosomal protein L25 | polymer | 94 | 10713.5 | 1 | UniProt (D7XH79) In PDB | Escherichia coli | |
47 | Y | 50S ribosomal protein L27 | polymer | 85 | 9146.5 | 1 | UniProt (P0A7L8) Pfam (PF01016) In PDB | Escherichia coli | Large ribosomal subunit protein bL27 |
48 | Z | 50S ribosomal protein L28 | polymer | 78 | 9027.6 | 1 | UniProt (A0A1X3JA73) Pfam (PF00830) In PDB | Escherichia coli | |
49 | 1 | 50S ribosomal protein L29 | polymer | 63 | 7286.5 | 1 | UniProt (D6IEL0) In PDB | Escherichia coli | |
50 | 2 | Large ribosomal subunit protein uL30 | polymer | 59 | 6554.8 | 1 | UniProt (C3SR32) Pfam (PF00327) In PDB | Escherichia coli | |
51 | 3 | 50S ribosomal protein L31 | polymer | 70 | 7887.1 | 1 | UniProt (P0A7M9) Pfam (PF01197) In PDB | Escherichia coli | Large ribosomal subunit protein bL31-A |
52 | 4 | 50S ribosomal protein L32 | polymer | 57 | 6463.4 | 1 | UniProt (D7XI28) In PDB | Escherichia coli | |
53 | 5 | Large ribosomal subunit protein bL33 | polymer | 55 | 6388.6 | 1 | UniProt (C3SME7) Pfam (PF00471) In PDB | Escherichia coli | |
54 | 6 | 50S ribosomal protein L34 | polymer | 46 | 5397.5 | 1 | UniProt (B7MGC4) Pfam (PF00468) In PDB | Escherichia coli | |
55 | 7 | 50S ribosomal protein L35 | polymer | 65 | 7313.0 | 1 | UniProt (P0A7Q1) Pfam (PF01632) In PDB | Escherichia coli | Large ribosomal subunit protein bL35,Ribosomal protein A |
56 | 8 | 50S ribosomal protein L36 | polymer | 38 | 4377.4 | 1 | UniProt (A0A0E2L017) Pfam (PF00444) In PDB | Escherichia coli | |
57 | a, A, x, B, C... | MAGNESIUM ION | non-polymer | 24.3 | 384 | Chemie (MG) | |||
58 | v | GUANOSINE-5',3'-TETRAPHOSPHATE | non-polymer | 603.2 | 1 | Chemie (G4P) | |||
59 | 8, 3 | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
60 | water | water | 18.0 | 96 | Chemie (HOH) |
Sequence modifications
k: 1 - 129 (UniProt: A0A0H3PWX2)
O: 1 - 136 (UniProt: E6BI61)
PDB | External Database | Details |
---|---|---|
Ias 119 | Asn 119 | conflict |
PDB | External Database | Details |
---|---|---|
Ms6 82 | Met 82 | conflict |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 56 |
Total formula weight | 2245539.3 | |
Non-Polymers* | Number of molecules | 387 |
Total formula weight | 10067.1 | |
All* | Total formula weight | 2255606.4 |