6YST
Structure of the P+9 ArfB-ribosome complex with P/E hybrid tRNA in the post-hydrolysis 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 (0) | 50S ribosomal protein L32 | polymer | 57 | 6463.4 | 1 | UniProt (P0A7N4) Pfam (PF01783) | Escherichia coli | ribosomal protein bL32 |
| 2 | B (1) | 50S ribosomal protein L33 | polymer | 55 | 6388.6 | 1 | UniProt (P0A7N9) Pfam (PF00471) | Escherichia coli | ribosomal protein bL33 |
| 3 | C (2) | 50S ribosomal protein L34 | polymer | 46 | 5397.5 | 1 | UniProt (P0A7P5) Pfam (PF00468) | Escherichia coli | ribosomal protein bL34 |
| 4 | D (3) | 50S ribosomal protein L35 | polymer | 65 | 7313.0 | 1 | UniProt (P0A7Q1) Pfam (PF01632) | Escherichia coli | Ribosomal protein A,ribosomal protein bL35 |
| 5 | E (4) | 50S ribosomal protein L36 | polymer | 38 | 4377.4 | 1 | UniProt (P0A7Q6) Pfam (PF00444) | Escherichia coli | Ribosomal protein B,ribosomal protein bL36 |
| 6 | F (5) | 50S ribosomal protein L10 | polymer | 165 | 17736.6 | 1 | UniProt (A0A073UC57) | Escherichia coli | |
| 7 | G (6) | 50S ribosomal protein L31 | polymer | 70 | 7887.1 | 1 | UniProt (U9XX47) | Escherichia coli | |
| 8 | H (A) | 23S ribosomal RNA | polymer | 2903 | 941518.4 | 1 | Escherichia coli | ||
| 9 | I (B) | 5S ribosomal RNA | polymer | 120 | 38790.1 | 1 | GenBank (1726050194) | Escherichia coli | |
| 10 | J (C) | 50S ribosomal protein L2 | polymer | 273 | 29923.6 | 1 | UniProt (P60422) Pfam (PF00181) Pfam (PF03947) | Escherichia coli | ribosomal protein uL2 |
| 11 | K (D) | 50S ribosomal protein L3 | polymer | 209 | 22277.5 | 1 | UniProt (P60438) Pfam (PF00297) | Escherichia coli | ribosomal protein uL3 |
| 12 | L (E) | 50S ribosomal protein L4 | polymer | 201 | 22121.6 | 1 | UniProt (P60723) Pfam (PF00573) | Escherichia coli | ribosomal protein uL4 |
| 13 | M (F) | 50S ribosomal protein L5 | polymer | 179 | 20333.6 | 1 | UniProt (P62399) Pfam (PF00281) Pfam (PF00673) | Escherichia coli | ribosomal protein uL5 |
| 14 | N (G) | 50S ribosomal protein L6 | polymer | 177 | 18932.8 | 1 | UniProt (P0AG55) Pfam (PF00347) | Escherichia coli | ribosomal protein uL6 |
| 15 | O (H) | 50S ribosomal protein L9 | polymer | 149 | 15789.0 | 1 | UniProt (P0A7R1) Pfam (PF01281) Pfam (PF03948) | Escherichia coli | ribosomal protein bL9 |
| 16 | P (I) | 50S ribosomal protein L11 | polymer | 142 | 14894.4 | 1 | UniProt (P0A7J7) Pfam (PF03946) Pfam (PF00298) | Escherichia coli | ribosomal protein uL11 |
| 17 | Q (J) | 50S ribosomal protein L13 | polymer | 142 | 16050.6 | 1 | UniProt (P0AA10) Pfam (PF00572) | Escherichia coli | ribosomal protein uL13 |
| 18 | R (K) | 50S ribosomal protein L14 | polymer | 123 | 13565.1 | 1 | UniProt (P0ADY3) Pfam (PF00238) | Escherichia coli | ribosomal protein uL14 |
| 19 | S (L) | 50S ribosomal protein L15 | polymer | 144 | 15008.5 | 1 | UniProt (P02413) Pfam (PF00828) | Escherichia coli | ribosomal protein uL15 |
| 20 | T (M) | 50S ribosomal protein L16 | polymer | 136 | 15312.3 | 1 | UniProt (P0ADY7) Pfam (PF00252) | Escherichia coli | ribosomal protein uL16 |
| 21 | U (N) | 50S ribosomal protein L17 | polymer | 127 | 14393.7 | 1 | UniProt (P0AG44) Pfam (PF01196) | Escherichia coli | ribosomal protein uL17 |
| 22 | V (O) | 50S ribosomal protein L18 | polymer | 117 | 12794.7 | 1 | UniProt (P0C018) Pfam (PF00861) | Escherichia coli | ribosomal protein uL18 |
| 23 | W (P) | 50S ribosomal protein L19 | polymer | 115 | 13159.3 | 1 | UniProt (P0A7K6) Pfam (PF01245) | Escherichia coli | ribosomal protein bL19 |
| 24 | X (Q) | 50S ribosomal protein L20 | polymer | 118 | 13528.0 | 1 | UniProt (P0A7L3) Pfam (PF00453) | Escherichia coli | ribosomal protein bL20 |
| 25 | Y (R) | 50S ribosomal protein L21 | polymer | 103 | 11586.4 | 1 | UniProt (P0AG48) Pfam (PF00829) | Escherichia coli | ribosomal protein bL21 |
| 26 | Z (S) | 50S ribosomal protein L22 | polymer | 110 | 12253.4 | 1 | UniProt (P61175) Pfam (PF00237) | Escherichia coli | ribosomal protein uL22 |
| 27 | AA (T) | 50S ribosomal protein L23 | polymer | 100 | 11222.2 | 1 | UniProt (P0ADZ0) Pfam (PF00276) | Escherichia coli | ribosomal protein uL23 |
| 28 | BA (U) | 50S ribosomal protein L24 | polymer | 104 | 11339.3 | 1 | UniProt (P60624) Pfam (PF00467) Pfam (PF17136) | Escherichia coli | ribosomal protein uL24 |
| 29 | CA (V) | 50S ribosomal protein L25 | polymer | 94 | 10713.5 | 1 | UniProt (P68919) Pfam (PF01386) | Escherichia coli | ribosomal protein bL25 |
| 30 | DA (W) | 50S ribosomal protein L27 | polymer | 85 | 9146.5 | 1 | UniProt (P0A7L8) Pfam (PF01016) | Escherichia coli | ribosomal protein bL27 |
| 31 | EA (X) | 50S ribosomal protein L28 | polymer | 78 | 9027.6 | 1 | UniProt (A0A0H3ENK5) Pfam (PF00830) | Escherichia coli | |
| 32 | FA (Y) | 50S ribosomal protein L29 | polymer | 63 | 7286.5 | 1 | UniProt (P0A7M6) Pfam (PF00831) | Escherichia coli | ribosomal protein uL29 |
| 33 | GA (Z) | 50S ribosomal protein L30 | polymer | 59 | 6554.8 | 1 | UniProt (P0AG51) Pfam (PF00327) | Escherichia coli | ribosomal protein uL30 |
| 34 | HA (a) | 16S ribosomal RNA | polymer | 1542 | 499873.4 | 1 | Escherichia coli | ||
| 35 | IA (b) | 30S ribosomal protein S2 | polymer | 240 | 26652.6 | 1 | UniProt (C3TPN2) Pfam (PF00318) | Escherichia coli | |
| 36 | JA (c) | 30S ribosomal protein S3 | polymer | 233 | 26031.3 | 1 | UniProt (C3SQX2) Pfam (PF07650) Pfam (PF00189) | Escherichia coli | |
| 37 | KA (d) | 30S ribosomal protein S4 | polymer | 206 | 23514.2 | 1 | UniProt (C3SR62) Pfam (PF00163) Pfam (PF01479) | Escherichia coli | |
| 38 | LA (e) | 30S ribosomal protein S5 | polymer | 167 | 17629.4 | 1 | UniProt (C3SR27) Pfam (PF00333) Pfam (PF03719) | Escherichia coli | |
| 39 | MA (f) | 30S ribosomal protein S6 | polymer | 135 | 15727.5 | 1 | Escherichia coli | ||
| 40 | NA (g) | 30S ribosomal protein S7 | polymer | 179 | 20055.2 | 1 | UniProt (A0A5Q2GFB5) | Escherichia coli | |
| 41 | OA (h) | 30S ribosomal protein S8 | polymer | 130 | 14146.6 | 1 | UniProt (C3SR12) Pfam (PF00410) | Escherichia coli | |
| 42 | PA (i) | 30S ribosomal protein S9 | polymer | 130 | 14886.3 | 1 | UniProt (C3SRY2) Pfam (PF00380) | Escherichia coli | |
| 43 | QA (j) | 30S ribosomal protein S10 | polymer | 103 | 11755.6 | 1 | UniProt (C3SQT7) Pfam (PF00338) | Escherichia coli | |
| 44 | RA (k) | 30S ribosomal protein S11 | polymer | 129 | 13871.0 | 1 | UniProt (C3SR57) Pfam (PF00411) | Escherichia coli | |
| 45 | SA (l) | 30S ribosomal protein S12 | polymer | 124 | 13768.2 | 1 | UniProt (I2UHF1) | Escherichia coli | |
| 46 | TA (m) | 30S ribosomal protein S13 | polymer | 118 | 13128.5 | 1 | UniProt (C3SR52) Pfam (PF00416) | Escherichia coli | |
| 47 | UA (n) | 30S ribosomal protein S14 | polymer | 102 | 11677.6 | 1 | UniProt (I2X5X6) | Escherichia coli | |
| 48 | VA (o) | 30S ribosomal protein S15 | polymer | 89 | 10290.8 | 1 | UniProt (C3SSQ7) Pfam (PF00312) | Escherichia coli | |
| 49 | WA (p) | 30S ribosomal protein S16 | polymer | 82 | 9207.6 | 1 | UniProt (C3SYP2) Pfam (PF00886) | Escherichia coli | |
| 50 | XA (q) | 30S ribosomal protein S17 | polymer | 84 | 9724.5 | 1 | UniProt (C3SQY7) Pfam (PF00366) | Escherichia coli | |
| 51 | YA (r) | 30S ribosomal protein S18 | polymer | 75 | 9005.5 | 1 | UniProt (C3SFP7) Pfam (PF01084) | Escherichia coli | |
| 52 | ZA (s) | 30S ribosomal protein S19 | polymer | 92 | 10455.4 | 1 | UniProt (C3SQW2) Pfam (PF00203) | Escherichia coli | |
| 53 | AB (t) | 30S ribosomal protein S20 | polymer | 87 | 9708.5 | 1 | UniProt (C3TRH7) Pfam (PF01649) | Escherichia coli | |
| 54 | BB (u) | 30S ribosomal protein S21 | polymer | 71 | 8524.0 | 1 | UniProt (C3STZ7) Pfam (PF01165) | Escherichia coli | |
| 55 | CB (v) | Api137 | polymer | 14 | 1699.1 | 1 | UniProt (Q8WSY8) Pfam (PF00807) | Apis mellifera | Apidaecin |
| 56 | DB (w) | P/E-site tRNAPhe | polymer | 76 | 24643.9 | 1 | Escherichia coli | ||
| 57 | EB (x) | mRNA | polymer | 15 | 4716.8 | 1 | Escherichia coli | ||
| 58 | FB (y) | Alternative stalled-ribosome rescue factor B | polymer | 140 | 15656.1 | 1 | UniProt (A0A024L8R9) Pfam (PF00472) | Escherichia coli | Aminoacyl-tRNA hydrolase,Class I peptide chain release factor,Peptidyl-tRNA hydrolase ArfB,Peptidyl-tRNA hydrolase YaeJ,Protein YaeJ,Putative peptidyl-tRNA hydrolase |
| 59 | AC, AD, AE, AF, AG... (A, a, 0, 4, 6...) | MAGNESIUM ION | non-polymer | 24.3 | 253 | Chemie (MG) | |||
| 60 | IB, KB (4, 6) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
| 61 | HC, SJ (A, M) | SODIUM ION | non-polymer | 23.0 | 2 | Chemie (NA) |
Sequence modifications
n: 0 - 101 (UniProt: I2X5X6)
v: 5 - 18 (UniProt: Q8WSY8)
| PDB | External Database | Details |
|---|---|---|
| Ala 36 | - | insertion |
| PDB | External Database | Details |
|---|---|---|
| Arg 10 | Gln 23 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 58 |
| Total formula weight | 2219436.0 | |
| Non-Polymers* | Number of molecules | 257 |
| Total formula weight | 6326.0 | |
| All* | Total formula weight | 2225761.9 |
