9SLG
Doxycycline Bound E. coli Ribosome with Rearranged Peptidyl Transferase Centre
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) | Large ribosomal subunit protein bL33 | polymer | 55 | 6388.6 | 1 | UniProt (P0A7N9) Pfam (PF00471) | Escherichia coli BL21(DE3) | 50S ribosomal protein L33 |
| 2 | B (1) | Large ribosomal subunit protein bL34 | polymer | 46 | 5397.5 | 1 | UniProt (P0A7P5) Pfam (PF00468) | Escherichia coli BL21(DE3) | 50S ribosomal protein L34 |
| 3 | C (2) | Large ribosomal subunit protein bL35 | polymer | 65 | 7313.0 | 1 | UniProt (P0A7Q1) Pfam (PF01632) | Escherichia coli BL21(DE3) | 50S ribosomal protein L35,Ribosomal protein A |
| 4 | D (3) | Large ribosomal subunit protein bL36A | polymer | 38 | 4377.4 | 1 | UniProt (P0A7Q6) Pfam (PF00444) | Escherichia coli BL21(DE3) | 50S ribosomal protein L36,Ribosomal protein B |
| 5 | E (4) | Large ribosomal subunit protein bL31 | polymer | 67 | 7613.8 | 1 | UniProt (P0A7M9) Pfam (PF01197) | Escherichia coli BL21(DE3) | 50S ribosomal protein L31 |
| 6 | F (A) | 16S ribosomal RNA | polymer | 1534 | 497376.9 | 1 | Escherichia coli BL21(DE3) | ||
| 7 | G (B) | Small ribosomal subunit protein uS2 | polymer | 241 | 26781.7 | 1 | UniProt (P0A7V0) Pfam (PF00318) | Escherichia coli BL21(DE3) | 30S ribosomal protein S2 |
| 8 | H (C) | Small ribosomal subunit protein uS3 | polymer | 233 | 26031.3 | 1 | UniProt (P0A7V3) Pfam (PF07650) Pfam (PF00189) | Escherichia coli BL21(DE3) | 30S ribosomal protein S3 |
| 9 | I (D) | Small ribosomal subunit protein uS4 | polymer | 206 | 23514.2 | 1 | UniProt (P0A7V8) Pfam (PF00163) Pfam (PF01479) | Escherichia coli BL21(DE3) | 30S ribosomal protein S4 |
| 10 | J (E) | Small ribosomal subunit protein uS5 | polymer | 167 | 17571.4 | 1 | UniProt (P0A7W1) Pfam (PF00333) Pfam (PF03719) | Escherichia coli BL21(DE3) | 30S ribosomal protein S5 |
| 11 | K (F) | Small ribosomal subunit protein bS6 | polymer | 131 | 15197.0 | 1 | UniProt (W8T6F0) Pfam (PF01250) UniProt (by SIFTS) (P02358) | Escherichia coli BL21(DE3) | |
| 12 | L (G) | Small ribosomal subunit protein uS7 | polymer | 156 | 17637.4 | 1 | UniProt (P02359) Pfam (PF00177) | Escherichia coli BL21(DE3) | 30S ribosomal protein S7 |
| 13 | M (H) | Small ribosomal subunit protein uS8 | polymer | 130 | 14146.6 | 1 | UniProt (P0A7W7) Pfam (PF00410) | Escherichia coli BL21(DE3) | 30S ribosomal protein S8 |
| 14 | N (I) | Small ribosomal subunit protein uS9 | polymer | 130 | 14886.3 | 1 | UniProt (P0A7X3) Pfam (PF00380) | Escherichia coli BL21(DE3) | 30S ribosomal protein S9 |
| 15 | O (J) | Small ribosomal subunit protein uS10 | polymer | 103 | 11755.6 | 1 | UniProt (P0A7R5) Pfam (PF00338) | Escherichia coli BL21(DE3) | 30S ribosomal protein S10,Transcription termination/antitermination protein NusE |
| 16 | P (L) | Small ribosomal subunit protein uS12 | polymer | 124 | 13814.2 | 1 | UniProt (P0A7S3) Pfam (PF00164) | Escherichia coli BL21(DE3) | 30S ribosomal protein S12 |
| 17 | Q (M) | Small ribosomal subunit protein uS13 | polymer | 118 | 13128.5 | 1 | UniProt (P0A7S9) Pfam (PF00416) | Escherichia coli BL21(DE3) | 30S ribosomal protein S13 |
| 18 | R (N) | Small ribosomal subunit protein uS14 | polymer | 101 | 11606.6 | 1 | UniProt (P0AG59) Pfam (PF00253) | Escherichia coli BL21(DE3) | 30S ribosomal protein S14 |
| 19 | S (O) | Small ribosomal subunit protein uS15 | polymer | 89 | 10290.8 | 1 | UniProt (P0ADZ4) Pfam (PF00312) | Escherichia coli BL21(DE3) | 30S ribosomal protein S15 |
| 20 | T (P) | Small ribosomal subunit protein bS16 | polymer | 82 | 9207.6 | 1 | UniProt (P0A7T3) Pfam (PF00886) | Escherichia coli BL21(DE3) | 30S ribosomal protein S16 |
| 21 | U (Q) | Small ribosomal subunit protein uS17 | polymer | 84 | 9724.5 | 1 | UniProt (P0AG63) Pfam (PF00366) | Escherichia coli BL21(DE3) | 30S ribosomal protein S17 |
| 22 | V (R) | Small ribosomal subunit protein bS18 | polymer | 75 | 9005.5 | 1 | UniProt (P0A7T7) Pfam (PF01084) | Escherichia coli BL21(DE3) | 30S ribosomal protein S18 |
| 23 | W (S) | Small ribosomal subunit protein uS19 | polymer | 92 | 10455.4 | 1 | UniProt (P0A7U3) Pfam (PF00203) | Escherichia coli BL21(DE3) | 30S ribosomal protein S19 |
| 24 | X (T) | Small ribosomal subunit protein bS20 | polymer | 87 | 9708.5 | 1 | UniProt (P0A7U7) Pfam (PF01649) | Escherichia coli BL21(DE3) | 30S ribosomal protein S20 |
| 25 | Y (U) | Small ribosomal subunit protein bS21 | polymer | 71 | 8524.0 | 1 | UniProt (P68679) Pfam (PF01165) | Escherichia coli BL21(DE3) | 30S ribosomal protein S21 |
| 26 | Z (Y) | Ribosome-associated inhibitor A | polymer | 113 | 12803.6 | 1 | UniProt (P0AD49) Pfam (PF02482) | Escherichia coli BL21(DE3) | Protein Y,pY,Ribosome associated factor Y,Spot Y |
| 27 | AA (a) | 23S ribosomal RNA | polymer | 2907 | 942848.3 | 1 | Escherichia coli BL21(DE3) | ||
| 28 | BA (b) | 5S ribosomal RNA | polymer | 120 | 38790.1 | 1 | GenBank (1845283434) | Escherichia coli BL21(DE3) | |
| 29 | CA (c) | Large ribosomal subunit protein uL2 | polymer | 273 | 29923.6 | 1 | UniProt (P60422) Pfam (PF00181) Pfam (PF03947) | Escherichia coli BL21(DE3) | 50S ribosomal protein L2 |
| 30 | DA (d) | Large ribosomal subunit protein uL3 | polymer | 209 | 22291.6 | 1 | UniProt (P60438) Pfam (PF00297) | Escherichia coli BL21(DE3) | 50S ribosomal protein L3 |
| 31 | EA (f) | Large ribosomal subunit protein uL5 | polymer | 179 | 20333.6 | 1 | UniProt (P62399) Pfam (PF00281) Pfam (PF00673) | Escherichia coli BL21(DE3) | 50S ribosomal protein L5 |
| 32 | FA (g) | Large ribosomal subunit protein uL6 | polymer | 177 | 18932.8 | 1 | UniProt (P0AG55) Pfam (PF00347) | Escherichia coli BL21(DE3) | 50S ribosomal protein L6 |
| 33 | GA (h) | Large ribosomal subunit protein bL9 | polymer | 149 | 15789.0 | 1 | UniProt (P0A7R1) Pfam (PF01281) Pfam (PF03948) | Escherichia coli BL21(DE3) | 50S ribosomal protein L9 |
| 34 | HA (i) | Large ribosomal subunit protein uL13 | polymer | 142 | 16050.6 | 1 | UniProt (P0AA10) Pfam (PF00572) | Escherichia coli BL21(DE3) | 50S ribosomal protein L13 |
| 35 | IA (j) | Large ribosomal subunit protein uL14 | polymer | 123 | 13565.1 | 1 | UniProt (P0ADY3) Pfam (PF00238) | Escherichia coli BL21(DE3) | 50S ribosomal protein L14 |
| 36 | JA (k) | Large ribosomal subunit protein uL15 | polymer | 144 | 15008.5 | 1 | UniProt (P02413) Pfam (PF00828) | Escherichia coli BL21(DE3) | 50S ribosomal protein L15 |
| 37 | KA (l) | Large ribosomal subunit protein uL16 | polymer | 136 | 15343.3 | 1 | UniProt (P0ADY7) Pfam (PF00252) | Escherichia coli BL21(DE3) | 50S ribosomal protein L16 |
| 38 | LA (m) | Large ribosomal subunit protein bL17 | polymer | 127 | 14393.7 | 1 | UniProt (P0AG44) Pfam (PF01196) | Escherichia coli BL21(DE3) | 50S ribosomal protein L17 |
| 39 | MA (n) | Large ribosomal subunit protein uL18 | polymer | 117 | 12794.7 | 1 | UniProt (P0C018) Pfam (PF00861) | Escherichia coli BL21(DE3) | 50S ribosomal protein L18 |
| 40 | NA (o) | Large ribosomal subunit protein bL19 | polymer | 115 | 13159.3 | 1 | UniProt (P0A7K6) Pfam (PF01245) | Escherichia coli BL21(DE3) | 50S ribosomal protein L19 |
| 41 | OA (p) | Large ribosomal subunit protein bL20 | polymer | 118 | 13528.0 | 1 | UniProt (P0A7L3) Pfam (PF00453) | Escherichia coli BL21(DE3) | 50S ribosomal protein L20 |
| 42 | PA (q) | Large ribosomal subunit protein bL21 | polymer | 103 | 11586.4 | 1 | UniProt (P0AG48) Pfam (PF00829) | Escherichia coli BL21(DE3) | 50S ribosomal protein L21 |
| 43 | QA (r) | Large ribosomal subunit protein uL22 | polymer | 110 | 12253.4 | 1 | UniProt (P61175) Pfam (PF00237) | Escherichia coli BL21(DE3) | 50S ribosomal protein L22 |
| 44 | RA (s) | Large ribosomal subunit protein uL23 | polymer | 100 | 11222.2 | 1 | UniProt (P0ADZ0) Pfam (PF00276) | Escherichia coli BL21(DE3) | 50S ribosomal protein L23 |
| 45 | SA (t) | Large ribosomal subunit protein uL24 | polymer | 104 | 11339.3 | 1 | UniProt (P60624) Pfam (PF00467) Pfam (PF17136) | Escherichia coli BL21(DE3) | 50S ribosomal protein L24 |
| 46 | TA (u) | Large ribosomal subunit protein bL25 | polymer | 94 | 10713.5 | 1 | UniProt (P68919) Pfam (PF01386) | Escherichia coli BL21(DE3) | 50S ribosomal protein L25 |
| 47 | UA (v) | Large ribosomal subunit protein bL27 | polymer | 85 | 9146.5 | 1 | UniProt (P0A7L8) Pfam (PF01016) | Escherichia coli BL21(DE3) | 50S ribosomal protein L27 |
| 48 | VA (w) | Large ribosomal subunit protein bL28 | polymer | 78 | 9027.6 | 1 | UniProt (P0A7M2) Pfam (PF00830) | Escherichia coli BL21(DE3) | 50S ribosomal protein L28 |
| 49 | WA (x) | Large ribosomal subunit protein uL29 | polymer | 63 | 7286.5 | 1 | UniProt (P0A7M6) Pfam (PF00831) | Escherichia coli BL21(DE3) | 50S ribosomal protein L29 |
| 50 | XA (y) | Large ribosomal subunit protein uL30 | polymer | 59 | 6554.8 | 1 | UniProt (P0AG51) Pfam (PF00327) | Escherichia coli BL21(DE3) | 50S ribosomal protein L30 |
| 51 | YA (z) | Large ribosomal subunit protein bL32 | polymer | 57 | 6463.4 | 1 | UniProt (P0A7N4) Pfam (PF01783) | Escherichia coli BL21(DE3) | 50S ribosomal protein L32 |
| 52 | ZA (e) | Large ribosomal subunit protein uL4 | polymer | 201 | 22121.6 | 1 | UniProt (P60723) Pfam (PF00573) | Escherichia coli BL21(DE3) | 50S ribosomal protein L4 |
| 53 | AB (6) | Large ribosomal subunit protein uL1 | polymer | 234 | 24765.7 | 1 | UniProt (P0A7L0) Pfam (PF00687) | Escherichia coli BL21(DE3) | 50S ribosomal protein L1 |
| 54 | BB (K) | Small ribosomal subunit protein uS11 | polymer | 129 | 13872.0 | 1 | UniProt (P0A7R9) Pfam (PF00411) | Escherichia coli BL21(DE3) | 30S ribosomal protein S11 |
| 55 | CB, DB (3, 4) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) PubChem (32051) | |||
| 56 | AC, AD, AE, AF, AG... (A, a, b, c, z...) | MAGNESIUM ION | non-polymer | 24.3 | 447 | Chemie (MG) PubChem (888) | |||
| 57 | AT, AU, BT, BU, CS... (a, b, c, A, e) | POTASSIUM ION | non-polymer | 39.1 | 77 | Chemie (K) PubChem (813) | |||
| 58 | KG (a) | (4S,4AR,5S,5AR,6R,12AS)-4-(DIMETHYLAMINO)-3,5,10,12,12A-PENTAHYDROXY-6-METHYL-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2-CARBOXAMIDE | non-polymer | 444.4 | 1 | Chemie (DXT) | |||
| 59 | AW, AX, BW, BX, CW... (R, z, S, e, T...) | water | water | 18.0 | 5213 | Chemie (HOH) |
Sequence modifications
E: 1 - 167 (UniProt: P0A7W1)
l: 1 - 136 (UniProt: P0ADY7)
K: 1 - 129 (UniProt: P0A7R9)
| PDB | External Database | Details |
|---|---|---|
| Ala 151 | Glu 151 | variant |
| PDB | External Database | Details |
|---|---|---|
| Ms6 82 | Met 82 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ias 119 | Asn 119 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 54 |
| Total formula weight | 2173362.4 | |
| Non-Polymers* | Number of molecules | 527 |
| Total formula weight | 14450.1 | |
| All* | Total formula weight | 2187812.5 |
