6XHX
Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with erythromycin and protein Y (YfiA) at 2.55A resolution
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, BB (1A, 2A) | 23S Ribosomal RNA | polymer | 2915 | 948035.6 | 2 | GenBank (AP008226.1) | Thermus thermophilus HB8 | |
| 2 | B, CB (1B, 2B) | 5S Ribosomal RNA | polymer | 121 | 39188.4 | 2 | GenBank (AP008226.1) | Thermus thermophilus HB8 | |
| 3 | C, DB (1D, 2D) | 50S ribosomal protein L2 | polymer | 276 | 30532.6 | 2 | UniProt (P60405) Pfam (PF00181) Pfam (PF03947) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 4 | D, EB (1E, 2E) | 50S ribosomal protein L3 | polymer | 206 | 22450.2 | 2 | UniProt (Q5SHN8) Pfam (PF00297) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 5 | E, FB (1F, 2F) | 50S ribosomal protein L4 | polymer | 210 | 23271.9 | 2 | UniProt (Q5SHN9) Pfam (PF00573) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | L1e |
| 6 | F, GB (1G, 2G) | 50S ribosomal protein L5 | polymer | 182 | 21061.6 | 2 | UniProt (Q5SHQ0) Pfam (PF00281) Pfam (PF00673) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 7 | G, HB (1H, 2H) | 50S ribosomal protein L6 | polymer | 180 | 19568.9 | 2 | UniProt (P0DOY8) Pfam (PF00347) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 8 | H, IB (1I, 2I) | 50S ribosomal protein L9 | polymer | 148 | 16422.2 | 2 | UniProt (Q5SLQ1) Pfam (PF01281) Pfam (PF03948) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 9 | I, JB (1N, 2N) | 50S ribosomal protein L13 | polymer | 140 | 15927.9 | 2 | UniProt (P60488) Pfam (PF00572) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 10 | J, KB (1O, 2O) | 50S ribosomal protein L14 | polymer | 122 | 13323.6 | 2 | UniProt (Q5SHP8) Pfam (PF00238) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 11 | K, LB (1P, 2P) | 50S ribosomal protein L15 | polymer | 150 | 16319.1 | 2 | UniProt (Q5SHQ7) Pfam (PF00828) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 12 | L, MB (1Q, 2Q) | 50S ribosomal protein L16 | polymer | 141 | 15993.9 | 2 | UniProt (P60489) Pfam (PF00252) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 13 | M, NB (1R, 2R) | 50S ribosomal protein L17 | polymer | 118 | 13750.1 | 2 | UniProt (Q9Z9H5) Pfam (PF01196) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 14 | N, OB (1S, 2S) | 50S ribosomal protein L18 | polymer | 112 | 12639.8 | 2 | UniProt (Q5SHQ4) Pfam (PF00861) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TL24 |
| 15 | O, PB (1T, 2T) | 50S ribosomal protein L19 | polymer | 146 | 17188.8 | 2 | UniProt (P60490) Pfam (PF01245) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 16 | P, QB (1U, 2U) | 50S ribosomal protein L20 | polymer | 118 | 13779.3 | 2 | UniProt (P60491) Pfam (PF00453) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 17 | Q, RB (1V, 2V) | 50S ribosomal protein L21 | polymer | 101 | 11069.2 | 2 | UniProt (P60492) Pfam (PF00829) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 18 | R, SB (1W, 2W) | 50S ribosomal protein L22 | polymer | 113 | 12808.1 | 2 | UniProt (Q5SHP3) Pfam (PF00237) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 19 | S, TB (1X, 2X) | 50S ribosomal protein L23 | polymer | 96 | 10759.8 | 2 | UniProt (Q5SHP0) Pfam (PF00276) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 20 | T, UB (1Y, 2Y) | 50S ribosomal protein L24 | polymer | 110 | 12085.6 | 2 | UniProt (Q5SHP9) Pfam (PF00467) Pfam (PF17136) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 21 | U, VB (1Z, 2Z) | 50S ribosomal protein L25 | polymer | 206 | 23238.6 | 2 | UniProt (Q5SHZ1) Pfam (PF01386) Pfam (PF14693) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TL5 |
| 22 | V, WB (10, 20) | 50S ribosomal protein L27 | polymer | 85 | 9529.1 | 2 | UniProt (P60493) Pfam (PF01016) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 23 | W, XB (11, 21) | 50S ribosomal protein L28 | polymer | 98 | 11004.2 | 2 | UniProt (P60494) Pfam (PF00830) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 24 | X, YB (12, 22) | 50S ribosomal protein L29 | polymer | 72 | 8670.3 | 2 | UniProt (Q5SHP6) Pfam (PF00831) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 25 | Y, ZB (13, 23) | 50S ribosomal protein L30 | polymer | 60 | 6799.1 | 2 | UniProt (Q5SHQ6) Pfam (PF00327) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 26 | AC, Z (14, 24) | 50S ribosomal protein L31 | polymer | 71 | 8300.5 | 2 | UniProt (Q5SJE1) Pfam (PF01197) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 27 | AA, BC (15, 25) | 50S ribosomal protein L32 | polymer | 60 | 6722.1 | 2 | UniProt (P80339) Pfam (PF01783) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 28 | BA, CC (16, 26) | 50S ribosomal protein L33 | polymer | 54 | 6632.9 | 2 | UniProt (P35871) Pfam (PF00471) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 29 | CA, DC (17, 27) | 50S ribosomal protein L34 | polymer | 49 | 6132.4 | 2 | UniProt (P80340) Pfam (PF00468) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 30 | DA, EC (18, 28) | 50S ribosomal protein L35 | polymer | 65 | 7506.2 | 2 | UniProt (Q5SKU1) Pfam (PF01632) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 31 | EA, FC (19, 29) | 50S ribosomal protein L36 | polymer | 37 | 4435.4 | 2 | UniProt (Q5SHR2) Pfam (PF00444) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | Ribosomal protein B |
| 32 | FA, GC (1a, 2a) | 16S Ribosomal RNA | polymer | 1521 | 493864.6 | 2 | GenBank (AP008226.1) | Thermus thermophilus HB8 | |
| 33 | GA, HC (1b, 2b) | 30S ribosomal protein S2 | polymer | 256 | 29317.7 | 2 | UniProt (P80371) Pfam (PF00318) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 34 | HA, IC (1c, 2c) | 30S ribosomal protein S3 | polymer | 239 | 26751.1 | 2 | UniProt (P80372) Pfam (PF07650) Pfam (PF00189) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 35 | IA, JC (1d, 2d) | 30S ribosomal protein S4 | polymer | 209 | 24373.4 | 2 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 36 | JA, KC (1e, 2e) | 30S ribosomal protein S5 | polymer | 162 | 17583.4 | 2 | UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 37 | KA, LC (1f, 2f) | 30S ribosomal protein S6 | polymer | 101 | 11988.8 | 2 | UniProt (Q5SLP8) Pfam (PF01250) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TS9 |
| 38 | LA, MC (1g, 2g) | 30S ribosomal protein S7 | polymer | 156 | 18051.0 | 2 | UniProt (P17291) Pfam (PF00177) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 39 | MA, NC (1h, 2h) | 30S ribosomal protein S8 | polymer | 138 | 15868.6 | 2 | UniProt (P0DOY9) Pfam (PF00410) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 40 | NA, OC (1i, 2i) | 30S ribosomal protein S9 | polymer | 128 | 14410.6 | 2 | UniProt (P80374) Pfam (PF00380) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 41 | OA, PC (1j, 2j) | 30S ribosomal protein S10 | polymer | 105 | 11955.0 | 2 | UniProt (Q5SHN7) Pfam (PF00338) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 42 | PA, QC (1k, 2k) | 30S ribosomal protein S11 | polymer | 129 | 13737.9 | 2 | UniProt (P80376) Pfam (PF00411) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 43 | QA, RC (1l, 2l) | 30S ribosomal protein S12 | polymer | 132 | 14683.5 | 2 | UniProt (Q5SHN3) Pfam (PF00164) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 44 | RA, SC (1m, 2m) | 30S ribosomal protein S13 | polymer | 126 | 14338.9 | 2 | UniProt (P80377) Pfam (PF00416) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 45 | SA, TC (1n, 2n) | 30S ribosomal protein S14 type Z | polymer | 61 | 7158.7 | 2 | UniProt (P0DOY6) Pfam (PF00253) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 46 | TA, UC (1o, 2o) | 30S ribosomal protein S15 | polymer | 89 | 10578.4 | 2 | UniProt (Q5SJ76) Pfam (PF00312) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 47 | UA, VC (1p, 2p) | 30S ribosomal protein S16 | polymer | 88 | 10410.0 | 2 | UniProt (Q5SJH3) Pfam (PF00886) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 48 | VA, WC (1q, 2q) | 30S ribosomal protein S17 | polymer | 105 | 12325.7 | 2 | UniProt (P0DOY7) Pfam (PF00366) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 49 | WA, XC (1r, 2r) | 30S ribosomal protein S18 | polymer | 88 | 10258.3 | 2 | UniProt (Q5SLQ0) Pfam (PF01084) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 50 | XA, YC (1s, 2s) | 30S ribosomal protein S19 | polymer | 93 | 10605.5 | 2 | UniProt (Q5SHP2) Pfam (PF00203) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 51 | YA, ZC (1t, 2t) | 30S ribosomal protein S20 | polymer | 106 | 11736.1 | 2 | UniProt (P80380) Pfam (PF01649) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 52 | AD, ZA (1u, 2u) | 30S ribosomal protein Thx | polymer | 27 | 3350.0 | 2 | UniProt (Q5SIH3) Pfam (PF17070) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | S31 |
| 53 | AB, BD (1y, 2y) | Ribosome-associated inhibitor A | polymer | 113 | 12803.6 | 2 | UniProt (P0AD49) Pfam (PF02482) | Escherichia coli (strain K12) | Protein Y,pY,Ribosome associated factor Y,Spot Y |
| 54 | AAA, AAB, AAC, ABA, ABB... (1A, 1a, 2A, 1l, 2B...) | MAGNESIUM ION | non-polymer | 24.3 | 2474 | Chemie (MG) | |||
| 55 | IQA, SKC (1A, 2A) | ERYTHROMYCIN A | non-polymer | 733.9 | 2 | Chemie (ERY) | |||
| 56 | HHB, JQA, NLC, NUA, QWA... (1a, 1A, 2B, 1T, 18...) | (4S)-2-METHYL-2,4-PENTANEDIOL | non-polymer | 118.2 | 7 | Chemie (MPD) | |||
| 57 | JTA, QRA (1F, 1B) | ARGININE | non-polymer | 175.2 | 2 | Chemie (ARG) | |||
| 58 | AWA, CVC, GIB, GNC, HWA... (14, 2n, 1n, 2Y, 15...) | ZINC ION | non-polymer | 65.4 | 12 | Chemie (ZN) | |||
| 59 | OHB, VUC (1d, 2d) | IRON/SULFUR CLUSTER | non-polymer | 351.6 | 2 | Chemie (SF4) | |||
| 60 | AWC, AXC, AYC, BWC, BXC... (10, 2D, 28, 11, 2E...) | water | water | 18.0 | 7774 | Chemie (HOH) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 106 |
| Total formula weight | 4362596.0 | |
| Non-Polymers* | Number of molecules | 2499 |
| Total formula weight | 64264.2 | |
| All* | Total formula weight | 4426860.3 |
