9QSJ
Cryo-EM structure of SKM-70S ribosomal stalled complex in the A-tRNA positioned (Body open) 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 (Y) | A-site tRNA-Leu | polymer | 73 | 23559.1 | 1 | Escherichia coli B | ||
| 2 | B (0) | Large ribosomal subunit protein bL33 | polymer | 55 | 6388.6 | 1 | UniProt (P0A7N9) | Escherichia coli B | 50S ribosomal protein L33 |
| 3 | C (1) | Large ribosomal subunit protein bL34 | polymer | 46 | 5397.5 | 1 | UniProt (P0A7P5) | Escherichia coli B | 50S ribosomal protein L34 |
| 4 | D (2) | Large ribosomal subunit protein bL35 | polymer | 65 | 7313.0 | 1 | UniProt (P0A7Q1) | Escherichia coli B | 50S ribosomal protein L35,Ribosomal protein A |
| 5 | E (3) | Large ribosomal subunit protein bL36A | polymer | 38 | 4377.4 | 1 | UniProt (P0A7Q6) | Escherichia coli B | 50S ribosomal protein L36,Ribosomal protein B |
| 6 | F (4) | Large ribosomal subunit protein bL31 | polymer | 70 | 7887.1 | 1 | UniProt (P0A7M9) | Escherichia coli B | 50S ribosomal protein L31 |
| 7 | G (A) | E. coli 16S rRNA | polymer | 1541 | 499553.3 | 1 | Escherichia coli B | ||
| 8 | H (B) | Small ribosomal subunit protein uS2 | polymer | 239 | 26579.4 | 1 | UniProt (P0A7V0) | Escherichia coli B | 30S ribosomal protein S2 |
| 9 | I (C) | Small ribosomal subunit protein uS3 | polymer | 233 | 26031.3 | 1 | UniProt (P0A7V3) | Escherichia coli B | 30S ribosomal protein S3 |
| 10 | J (D) | Small ribosomal subunit protein uS4 | polymer | 206 | 23514.2 | 1 | UniProt (P0A7V8) | Escherichia coli B | 30S ribosomal protein S4 |
| 11 | K (E) | Small ribosomal subunit protein uS5 | polymer | 167 | 17629.4 | 1 | UniProt (P0A7W1) | Escherichia coli B | 30S ribosomal protein S5 |
| 12 | L (F) | Small ribosomal subunit protein bS6, fully modified isoform | polymer | 135 | 15727.5 | 1 | UniProt (P02358) | Escherichia coli B | |
| 13 | M (G) | Small ribosomal subunit protein uS7 | polymer | 179 | 20055.2 | 1 | UniProt (P02359) | Escherichia coli B | 30S ribosomal protein S7 |
| 14 | N (H) | Small ribosomal subunit protein uS8 | polymer | 130 | 14146.6 | 1 | UniProt (P0A7W7) | Escherichia coli B | 30S ribosomal protein S8 |
| 15 | O (I) | Small ribosomal subunit protein uS9 | polymer | 130 | 14886.3 | 1 | UniProt (P0A7X3) | Escherichia coli B | 30S ribosomal protein S9 |
| 16 | P (J) | Small ribosomal subunit protein uS10 | polymer | 103 | 11755.6 | 1 | UniProt (P0A7R5) | Escherichia coli B | 30S ribosomal protein S10,Transcription termination/antitermination protein NusE |
| 17 | Q (K) | Small ribosomal subunit protein uS11 | polymer | 129 | 13872.0 | 1 | UniProt (P0A7R9) | Escherichia coli B | 30S ribosomal protein S11 |
| 18 | R (L) | Small ribosomal subunit protein uS12 | polymer | 124 | 13814.2 | 1 | UniProt (P0A7S3) | Escherichia coli B | 30S ribosomal protein S12 |
| 19 | S (M) | Small ribosomal subunit protein uS13 | polymer | 118 | 13128.5 | 1 | UniProt (P0A7S9) | Escherichia coli B | 30S ribosomal protein S13 |
| 20 | T (N) | Small ribosomal subunit protein uS14 | polymer | 101 | 11606.6 | 1 | UniProt (P0AG59) | Escherichia coli B | 30S ribosomal protein S14 |
| 21 | U (O) | Small ribosomal subunit protein uS15 | polymer | 89 | 10290.8 | 1 | UniProt (P0ADZ4) | Escherichia coli B | 30S ribosomal protein S15 |
| 22 | V (P) | Small ribosomal subunit protein bS16 | polymer | 82 | 9207.6 | 1 | UniProt (P0A7T3) | Escherichia coli B | 30S ribosomal protein S16 |
| 23 | W (Q) | Small ribosomal subunit protein uS17 | polymer | 84 | 9724.5 | 1 | UniProt (P0AG63) | Escherichia coli B | 30S ribosomal protein S17 |
| 24 | X (R) | Small ribosomal subunit protein bS18 | polymer | 75 | 9005.5 | 1 | UniProt (P0A7T7) | Escherichia coli B | 30S ribosomal protein S18 |
| 25 | Y (S) | Small ribosomal subunit protein uS19 | polymer | 92 | 10455.4 | 1 | UniProt (P0A7U3) | Escherichia coli B | 30S ribosomal protein S19 |
| 26 | Z (T) | Small ribosomal subunit protein bS20 | polymer | 87 | 9708.5 | 1 | UniProt (P0A7U7) | Escherichia coli B | 30S ribosomal protein S20 |
| 27 | AA (U) | Small ribosomal subunit protein bS21 | polymer | 71 | 8524.0 | 1 | UniProt (P68679) | Escherichia coli B | 30S ribosomal protein S21 |
| 28 | BA (X) | ermBL mRNA transcript | polymer | 136 | 43742.0 | 1 | Streptococcus sanguinis | ||
| 29 | CA (Z) | P-site tRNA-fMet | polymer | 73 | 23581.1 | 1 | Escherichia coli B | ||
| 30 | DA (a) | E. coli 23S rRNA | polymer | 2900 | 940563.8 | 1 | Escherichia coli B | ||
| 31 | EA (b) | E. coli 5S rRNA | polymer | 120 | 38790.1 | 1 | GenBank (1815787944) | Escherichia coli B | |
| 32 | FA (c) | Large ribosomal subunit protein uL2 | polymer | 273 | 29923.6 | 1 | UniProt (P60422) | Escherichia coli B | 50S ribosomal protein L2 |
| 33 | GA (d) | Large ribosomal subunit protein uL3 | polymer | 209 | 22291.6 | 1 | UniProt (P60438) | Escherichia coli B | 50S ribosomal protein L3 |
| 34 | HA (e) | Large ribosomal subunit protein uL4 | polymer | 201 | 22121.6 | 1 | UniProt (P60723) | Escherichia coli B | 50S ribosomal protein L4 |
| 35 | IA (f) | Large ribosomal subunit protein uL5 | polymer | 179 | 20333.6 | 1 | UniProt (P62399) | Escherichia coli B | 50S ribosomal protein L5 |
| 36 | JA (g) | Large ribosomal subunit protein uL6 | polymer | 177 | 18932.8 | 1 | UniProt (P0AG55) | Escherichia coli B | 50S ribosomal protein L6 |
| 37 | KA (h) | Large ribosomal subunit protein bL9 | polymer | 149 | 15789.0 | 1 | UniProt (P0A7R1) | Escherichia coli B | 50S ribosomal protein L9 |
| 38 | LA (i) | Large ribosomal subunit protein uL13 | polymer | 142 | 16050.6 | 1 | UniProt (P0AA10) | Escherichia coli B | 50S ribosomal protein L13 |
| 39 | MA (j) | Large ribosomal subunit protein uL14 | polymer | 123 | 13565.1 | 1 | UniProt (P0ADY3) | Escherichia coli B | 50S ribosomal protein L14 |
| 40 | NA (k) | Large ribosomal subunit protein uL15 | polymer | 144 | 15008.5 | 1 | UniProt (P02413) | Escherichia coli B | 50S ribosomal protein L15 |
| 41 | OA (l) | Large ribosomal subunit protein uL16 | polymer | 136 | 15343.3 | 1 | UniProt (P0ADY7) | Escherichia coli B | 50S ribosomal protein L16 |
| 42 | PA (m) | Large ribosomal subunit protein bL17 | polymer | 127 | 14393.7 | 1 | UniProt (P0AG44) | Escherichia coli B | 50S ribosomal protein L17 |
| 43 | QA (n) | Large ribosomal subunit protein uL18 | polymer | 117 | 12794.7 | 1 | UniProt (P0C018) | Escherichia coli B | 50S ribosomal protein L18 |
| 44 | RA (o) | Large ribosomal subunit protein bL19 | polymer | 115 | 13159.3 | 1 | UniProt (P0A7K6) | Escherichia coli B | 50S ribosomal protein L19 |
| 45 | SA (p) | Large ribosomal subunit protein bL20 | polymer | 118 | 13528.0 | 1 | UniProt (P0A7L3) | Escherichia coli B | 50S ribosomal protein L20 |
| 46 | TA (q) | Large ribosomal subunit protein bL21 | polymer | 103 | 11586.4 | 1 | UniProt (P0AG48) | Escherichia coli B | 50S ribosomal protein L21 |
| 47 | UA (r) | Large ribosomal subunit protein uL22 | polymer | 110 | 12253.4 | 1 | UniProt (C3SQW7) | Escherichia coli B | |
| 48 | VA (s) | Large ribosomal subunit protein uL23 | polymer | 100 | 11222.2 | 1 | UniProt (C3SQV2) | Escherichia coli B | |
| 49 | WA (t) | Large ribosomal subunit protein uL24 | polymer | 104 | 11339.3 | 1 | UniProt (P60624) | Escherichia coli B | 50S ribosomal protein L24 |
| 50 | XA (u) | Large ribosomal subunit protein bL25 | polymer | 94 | 10713.5 | 1 | UniProt (P68919) | Escherichia coli B | 50S ribosomal protein L25 |
| 51 | YA (v) | Large ribosomal subunit protein bL27 | polymer | 85 | 9146.5 | 1 | UniProt (P0A7L8) | Escherichia coli B | 50S ribosomal protein L27 |
| 52 | ZA (w) | Large ribosomal subunit protein bL28 | polymer | 78 | 9027.6 | 1 | UniProt (P0A7M2) | Escherichia coli B | 50S ribosomal protein L28 |
| 53 | AB (x) | Large ribosomal subunit protein uL29 | polymer | 63 | 7286.5 | 1 | UniProt (P0A7M6) | Escherichia coli B | 50S ribosomal protein L29 |
| 54 | BB (y) | Large ribosomal subunit protein uL30 | polymer | 59 | 6554.8 | 1 | UniProt (P0AG51) | Escherichia coli B | 50S ribosomal protein L30 |
| 55 | CB (z) | Large ribosomal subunit protein bL32 | polymer | 57 | 6463.4 | 1 | UniProt (P0A7N4) | Escherichia coli B | 50S ribosomal protein L32 |
| 56 | DB, EB (3, 4) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
| 57 | FB (A) | [(2~{S},3~{S},4~{R},5~{R},6~{S})-4-[(2~{S},3~{R},4~{S},5~{R},6~{S})-5-acetamido-6-(hydroxymethyl)-4-[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-4-[(2~{S},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-5-methoxy-3,4-bis(oxidanyl)oxan-2-yl]oxy-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-oxan-2-yl]oxy-2-(hydroxymethyl)-6-[[~{N}-[4-[(~{N}-methylcarbamimidoyl)amino]butyl]carbamimidoyl]amino]-5-oxidanyl-oxan-3-yl] carbamate | non-polymer | 932.9 | 1 | Chemie (A1JAI) | |||
| 58 | AC, AD, AE, AF, AG... (A, a, b, c, d...) | MAGNESIUM ION | non-polymer | 24.3 | 311 | Chemie (MG) | |||
| 59 | AO, AP, BO, BP, CO... (P, u, Q, v, R...) | water | water | 18.0 | 8103 | Chemie (HOH) |
Sequence modifications
K: 1 - 129 (UniProt: P0A7R9)
| PDB | External Database | Details |
|---|---|---|
| Ias 119 | Asn 119 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 55 |
| Total formula weight | 2229644.5 | |
| Non-Polymers* | Number of molecules | 314 |
| Total formula weight | 8622.6 | |
| All* | Total formula weight | 2238267.1 |
