5MDW
Structure of ArfA(A18T) and RF2 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 | A (1) | 23S ribosomal RNA | polymer | 2904 | 941832.6 | 1 | GenBank (802133627) | Escherichia coli | |
| 2 | B (2) | 16S ribosomal RNA | polymer | 1534 | 497406.0 | 1 | GenBank (802133627) | Escherichia coli | |
| 3 | C (3) | 5S ribosomal RNA | polymer | 120 | 38790.1 | 1 | GenBank (1028480521) | Escherichia coli | |
| 4 | D (4) | mRNA | polymer | 18 | 5922.6 | 1 | Escherichia coli | ||
| 5 | E (5) | fMet-NH-tRNA(fMet) | polymer | 78 | 24966.1 | 1 | Escherichia coli | ||
| 6 | F (6) | Alternative ribosome-rescue factor A | polymer | 61 | 7147.2 | 1 | UniProt (P36675) Pfam (PF03889) | Escherichia coli | |
| 7 | G (7) | Peptide chain release factor 2 | polymer | 365 | 41314.7 | 1 | UniProt (P07012) Pfam (PF03462) Pfam (PF00472) | Escherichia coli | RF-2 |
| 8 | H (B) | 50S ribosomal protein L2 | polymer | 273 | 29923.6 | 1 | UniProt (P60422) Pfam (PF00181) Pfam (PF03947) | Escherichia coli | |
| 9 | I (C) | 50S ribosomal protein L3 | polymer | 209 | 22277.5 | 1 | UniProt (P60438) Pfam (PF00297) | Escherichia coli | |
| 10 | J (D) | 50S ribosomal protein L4 | polymer | 201 | 22121.6 | 1 | UniProt (P60723) Pfam (PF00573) | Escherichia coli | |
| 11 | K (E) | 50S ribosomal protein L5 | polymer | 179 | 20333.6 | 1 | UniProt (P62399) Pfam (PF00281) Pfam (PF00673) | Escherichia coli | |
| 12 | L (F) | 50S ribosomal protein L6 | polymer | 177 | 18932.8 | 1 | UniProt (P0AG55) Pfam (PF00347) | Escherichia coli | |
| 13 | M (G) | 50S ribosomal protein L9 | polymer | 149 | 15789.0 | 1 | UniProt (P0A7R1) Pfam (PF01281) Pfam (PF03948) | Escherichia coli | |
| 14 | N (H) | 50S ribosomal protein L10 | polymer | 165 | 17736.6 | 1 | UniProt (P0A7J3) Pfam (PF00466) | Escherichia coli | 50S ribosomal protein L8 |
| 15 | O (I) | 50S ribosomal protein L11 | polymer | 142 | 14894.4 | 1 | UniProt (P0A7J7) Pfam (PF03946) Pfam (PF00298) | Escherichia coli | |
| 16 | P (J) | 50S ribosomal protein L13 | polymer | 142 | 16050.6 | 1 | UniProt (P0AA10) Pfam (PF00572) | Escherichia coli | |
| 17 | Q (K) | 50S ribosomal protein L14 | polymer | 123 | 13565.1 | 1 | UniProt (P0ADY3) Pfam (PF00238) | Escherichia coli | |
| 18 | R (L) | 50S ribosomal protein L15 | polymer | 144 | 15008.5 | 1 | UniProt (P02413) Pfam (PF00828) | Escherichia coli | |
| 19 | S (M) | 50S ribosomal protein L16 | polymer | 136 | 15312.3 | 1 | UniProt (P0ADY7) Pfam (PF00252) | Escherichia coli | |
| 20 | T (N) | 50S ribosomal protein L17 | polymer | 127 | 14393.7 | 1 | UniProt (P0AG44) Pfam (PF01196) | Escherichia coli | |
| 21 | U (O) | 50S ribosomal protein L18 | polymer | 117 | 12794.7 | 1 | UniProt (P0C018) Pfam (PF00861) | Escherichia coli | |
| 22 | V (P) | 50S ribosomal protein L19 | polymer | 115 | 13159.3 | 1 | UniProt (P0A7K6) Pfam (PF01245) | Escherichia coli | |
| 23 | W (Q) | 50S ribosomal protein L20 | polymer | 118 | 13528.0 | 1 | UniProt (P0A7L3) Pfam (PF00453) | Escherichia coli | |
| 24 | X (R) | 50S ribosomal protein L21 | polymer | 103 | 11586.4 | 1 | UniProt (P0AG48) Pfam (PF00829) | Escherichia coli | |
| 25 | Y (S) | 50S ribosomal protein L22 | polymer | 110 | 12253.4 | 1 | UniProt (P61175) Pfam (PF00237) | Escherichia coli | |
| 26 | Z (T) | 50S ribosomal protein L23 | polymer | 100 | 11222.2 | 1 | UniProt (P0ADZ0) Pfam (PF00276) | Escherichia coli | |
| 27 | AA (U) | 50S ribosomal protein L24 | polymer | 104 | 11339.3 | 1 | UniProt (P60624) Pfam (PF00467) Pfam (PF17136) | Escherichia coli | |
| 28 | BA (V) | 50S ribosomal protein L25 | polymer | 94 | 10713.5 | 1 | UniProt (P68919) Pfam (PF01386) | Escherichia coli | |
| 29 | CA (W) | 50S ribosomal protein L27 | polymer | 85 | 9146.5 | 1 | UniProt (P0A7L8) Pfam (PF01016) | Escherichia coli | |
| 30 | DA (X) | 50S ribosomal protein L28 | polymer | 78 | 9027.6 | 1 | UniProt (P0A7M2) Pfam (PF00830) | Escherichia coli | |
| 31 | EA (Y) | 50S ribosomal protein L29 | polymer | 63 | 7286.5 | 1 | UniProt (P0A7M6) Pfam (PF00831) | Escherichia coli | |
| 32 | FA (Z) | 50S ribosomal protein L30 | polymer | 59 | 6554.8 | 1 | UniProt (P0AG51) Pfam (PF00327) | Escherichia coli | |
| 33 | GA (a) | 50S ribosomal protein L31 | polymer | 70 | 7887.1 | 1 | UniProt (P0A7M9) Pfam (PF01197) | Escherichia coli | |
| 34 | HA (b) | 50S ribosomal protein L32 | polymer | 57 | 6463.4 | 1 | UniProt (P0A7N4) Pfam (PF01783) | Escherichia coli | |
| 35 | IA (c) | 50S ribosomal protein L33 | polymer | 55 | 6388.6 | 1 | UniProt (P0A7N9) Pfam (PF00471) | Escherichia coli | |
| 36 | JA (d) | 50S ribosomal protein L34 | polymer | 46 | 5397.5 | 1 | UniProt (P0A7P5) Pfam (PF00468) | Escherichia coli | |
| 37 | KA (e) | 50S ribosomal protein L35 | polymer | 65 | 7313.0 | 1 | UniProt (P0A7Q1) Pfam (PF01632) | Escherichia coli | Ribosomal protein A |
| 38 | LA (f) | 50S ribosomal protein L36 | polymer | 38 | 4377.4 | 1 | UniProt (P0A7Q6) Pfam (PF00444) | Escherichia coli | Ribosomal protein B |
| 39 | MA (g) | 30S ribosomal protein S2 | polymer | 241 | 26781.7 | 1 | UniProt (P0A7V0) Pfam (PF00318) | Escherichia coli | |
| 40 | NA (h) | 30S ribosomal protein S3 | polymer | 233 | 26031.3 | 1 | UniProt (P0A7V3) Pfam (PF07650) Pfam (PF00189) | Escherichia coli | |
| 41 | OA (i) | 30S ribosomal protein S4 | polymer | 206 | 23514.2 | 1 | UniProt (P0A7V8) Pfam (PF00163) Pfam (PF01479) | Escherichia coli | |
| 42 | PA (j) | 30S ribosomal protein S5 | polymer | 167 | 17629.4 | 1 | UniProt (P0A7W1) Pfam (PF00333) Pfam (PF03719) | Escherichia coli | |
| 43 | QA (k) | 30S ribosomal protein S6 | polymer | 135 | 15727.5 | 1 | UniProt (P02358) Pfam (PF01250) | Escherichia coli | |
| 44 | RA (l) | 30S ribosomal protein S7 | polymer | 179 | 20055.2 | 1 | UniProt (P02359) Pfam (PF00177) | Escherichia coli | |
| 45 | SA (m) | 30S ribosomal protein S8 | polymer | 130 | 14146.6 | 1 | UniProt (P0A7W7) Pfam (PF00410) | Escherichia coli | |
| 46 | TA (n) | 30S ribosomal protein S9 | polymer | 130 | 14886.3 | 1 | UniProt (P0A7X3) Pfam (PF00380) | Escherichia coli | |
| 47 | UA (o) | 30S ribosomal protein S10 | polymer | 103 | 11755.6 | 1 | UniProt (P0A7R5) Pfam (PF00338) | Escherichia coli | |
| 48 | VA (p) | 30S ribosomal protein S11 | polymer | 129 | 13871.0 | 1 | UniProt (P0A7R9) Pfam (PF00411) | Escherichia coli | |
| 49 | WA (q) | 30S ribosomal protein S12 | polymer | 124 | 13814.2 | 1 | UniProt (P0A7S3) Pfam (PF00164) | Escherichia coli | |
| 50 | XA (r) | 30S ribosomal protein S13 | polymer | 118 | 13128.5 | 1 | UniProt (P0A7S9) Pfam (PF00416) | Escherichia coli | |
| 51 | YA (s) | 30S ribosomal protein S14 | polymer | 101 | 11606.6 | 1 | UniProt (P0AG59) Pfam (PF00253) | Escherichia coli | |
| 52 | ZA (t) | 30S ribosomal protein S15 | polymer | 89 | 10290.8 | 1 | UniProt (P0ADZ4) Pfam (PF00312) | Escherichia coli | |
| 53 | AB (u) | 30S ribosomal protein S16 | polymer | 82 | 9207.6 | 1 | UniProt (P0A7T3) Pfam (PF00886) | Escherichia coli | |
| 54 | BB (v) | 30S ribosomal protein S17 | polymer | 84 | 9724.5 | 1 | UniProt (P0AG63) Pfam (PF00366) | Escherichia coli | |
| 55 | CB (w) | 30S ribosomal protein S18 | polymer | 75 | 9005.5 | 1 | UniProt (P0A7T7) Pfam (PF01084) | Escherichia coli | |
| 56 | DB (x) | 30S ribosomal protein S19 | polymer | 92 | 10455.4 | 1 | UniProt (P0A7U3) Pfam (PF00203) | Escherichia coli | |
| 57 | EB (y) | 30S ribosomal protein S20 | polymer | 87 | 9708.5 | 1 | UniProt (P0A7U7) Pfam (PF01649) | Escherichia coli | |
| 58 | FB (z) | 30S ribosomal protein S21 | polymer | 71 | 8524.0 | 1 | UniProt (P68679) Pfam (PF01165) | Escherichia coli | |
| 59 | AC, AD, AE, AF, AG... (1, 2, 5, b, i...) | MAGNESIUM ION | non-polymer | 24.3 | 438 | Chemie (MG) | |||
| 60 | YR (5) | N-FORMYLMETHIONINE | non-polymer | 177.2 | 1 | Chemie (FME) | |||
| 61 | BS, DS (a, f) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
| 62 | FS (B) | water | water | 18.0 | 2 | Chemie (HOH) |
Sequence modifications
1: 1 - 2904 (GenBank: 802133627)
6: 1 - 60 (UniProt: P36675)
| PDB | External Database | Details |
|---|---|---|
| A 887 | U 2724602 | conflict |
| PDB | External Database | Details |
|---|---|---|
| His 0 | - | expression tag |
| Thr 18 | Ala 18 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 58 |
| Total formula weight | 2250021.7 | |
| Non-Polymers* | Number of molecules | 441 |
| Total formula weight | 10953.6 | |
| All* | Total formula weight | 2260975.3 |
