5FDU
Crystal structure of the Metalnikowin I antimicrobial peptide bound to the Thermus thermophilus 70S ribosome
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, CB (1A, 2A) | 23S ribosomal RNA | polymer | 2915 | 948021.6 | 2 | GenBank (55771382) | Thermus thermophilus HB8 | |
| 2 | B, DB (1B, 2B) | 5S ribosomal RNA | polymer | 120 | 38882.2 | 2 | GenBank (48271) | Thermus thermophilus HB8 | |
| 3 | C, EB (1D, 2D) | 50S ribosomal protein L2 | polymer | 275 | 30401.4 | 2 | UniProt (P60405) Pfam (PF00181) Pfam (PF03947) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 4 | D, FB (1E, 2E) | 50S ribosomal protein L3 | polymer | 204 | 22250.0 | 2 | UniProt (Q5SHN8) Pfam (PF00297) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 5 | E, GB (1F, 2F) | 50S ribosomal protein L4 | polymer | 203 | 22512.0 | 2 | UniProt (Q5SHN9) Pfam (PF00573) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | L1e |
| 6 | F, HB (1G, 2G) | 50S ribosomal protein L5 | polymer | 181 | 20930.4 | 2 | UniProt (Q5SHQ0) Pfam (PF00281) Pfam (PF00673) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 7 | G, IB (1H, 2H) | 50S ribosomal protein L6 | polymer | 174 | 18980.2 | 2 | UniProt (Q5SHQ3) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 8 | H, JB (1I, 2I) | 50S ribosomal protein L9 | polymer | 147 | 16293.1 | 2 | UniProt (Q5SLQ1) Pfam (PF01281) Pfam (PF03948) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 9 | I, KB (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, LB (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, MB (1P, 2P) | 50S ribosomal protein L15 | polymer | 149 | 16248.1 | 2 | UniProt (Q5SHQ7) Pfam (PF00828) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 12 | L, NB (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, OB (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, PB (1S, 2S) | 50S ribosomal protein L18 | polymer | 110 | 12437.6 | 2 | UniProt (Q5SHQ4) Pfam (PF00861) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TL24 |
| 15 | O, QB (1T, 2T) | 50S ribosomal protein L19 | polymer | 131 | 15503.0 | 2 | UniProt (P60490) Pfam (PF01245) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 16 | P, RB (1U, 2U) | 50S ribosomal protein L20 | polymer | 116 | 13591.0 | 2 | UniProt (P60491) Pfam (PF00453) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 17 | Q, SB (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, TB (1W, 2W) | 50S ribosomal protein L22 | polymer | 112 | 12678.9 | 2 | UniProt (Q5SHP3) Pfam (PF00237) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 19 | S, UB (1X, 2X) | 50S ribosomal protein L23 | polymer | 95 | 10646.6 | 2 | UniProt (Q5SHP0) Pfam (PF00276) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 20 | T, VB (1Y, 2Y) | 50S ribosomal protein L24 | polymer | 107 | 11726.3 | 2 | UniProt (Q5SHP9) Pfam (PF00467) Pfam (PF17136) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 21 | U, WB (1Z, 2Z) | 50S ribosomal protein L25 | polymer | 203 | 22851.2 | 2 | UniProt (Q5SHZ1) Pfam (PF01386) Pfam (PF14693) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TL5 |
| 22 | V, XB (10, 20) | 50S ribosomal protein L27 | polymer | 77 | 8689.0 | 2 | UniProt (P60493) Pfam (PF01016) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 23 | W, YB (11, 21) | 50S ribosomal protein L28 | polymer | 97 | 10873.0 | 2 | UniProt (P60494) Pfam (PF00830) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 24 | X, ZB (12, 22) | 50S ribosomal protein L29 | polymer | 70 | 8485.1 | 2 | UniProt (Q5SHP6) Pfam (PF00831) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 25 | AC, Y (13, 23) | 50S ribosomal protein L30 | polymer | 59 | 6667.9 | 2 | UniProt (Q5SHQ6) Pfam (PF00327) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 26 | BC, Z (14, 24) | 50S ribosomal protein L31 | polymer | 69 | 8086.3 | 2 | UniProt (Q5SJE1) Pfam (PF01197) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 27 | AA, CC (15, 25) | 50S ribosomal protein L32 | polymer | 59 | 6590.9 | 2 | UniProt (P80339) Pfam (PF01783) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 28 | BA, DC (16, 26) | 50S ribosomal protein L33 | polymer | 53 | 6501.7 | 2 | UniProt (P35871) Pfam (PF00471) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 29 | CA, EC (17, 27) | 50S ribosomal protein L34 | polymer | 48 | 5975.3 | 2 | UniProt (P80340) Pfam (PF00468) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 30 | DA, FC (18, 28) | 50S ribosomal protein L35 | polymer | 64 | 7375.0 | 2 | UniProt (Q5SKU1) Pfam (PF01632) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 31 | EA, GC (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, HC (1a, 2a) | 16S ribosomal RNA | polymer | 1521 | 493864.6 | 2 | GenBank (155076) | Thermus thermophilus HB8 | |
| 33 | GA, IC (1b, 2b) | 30S ribosomal protein S2 | polymer | 231 | 26646.9 | 2 | UniProt (P80371) Pfam (PF00318) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 34 | HA, JC (1c, 2c) | 30S ribosomal protein S3 | polymer | 206 | 22862.4 | 2 | UniProt (P80372) Pfam (PF07650) Pfam (PF00189) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 35 | IA, KC (1d, 2d) | 30S ribosomal protein S4 | polymer | 208 | 24242.3 | 2 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 36 | JA, LC (1e, 2e) | 30S ribosomal protein S5 | polymer | 148 | 16144.8 | 2 | UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 37 | KA, MC (1f, 2f) | 30S ribosomal protein S6 | polymer | 100 | 11917.7 | 2 | UniProt (Q5SLP8) Pfam (PF01250) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TS9 |
| 38 | LA, NC (1g, 2g) | 30S ribosomal protein S7 | polymer | 155 | 17919.8 | 2 | UniProt (P17291) Pfam (PF00177) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 39 | MA, OC (1h, 2h) | 30S ribosomal protein S8 | polymer | 137 | 15737.4 | 2 | UniProt (Q5SHQ2) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 40 | NA, PC (1i, 2i) | 30S ribosomal protein S9 | polymer | 127 | 14279.4 | 2 | UniProt (P80374) Pfam (PF00380) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 41 | OA, QC (1j, 2j) | 30S ribosomal protein S10 | polymer | 97 | 11170.0 | 2 | UniProt (Q5SHN7) Pfam (PF00338) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 42 | PA, RC (1k, 2k) | 30S ribosomal protein S11 | polymer | 114 | 12032.7 | 2 | UniProt (P80376) Pfam (PF00411) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 43 | QA, SC (1l, 2l) | 30S ribosomal protein S12 | polymer | 122 | 13650.2 | 2 | UniProt (Q5SHN3) Pfam (PF00164) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 44 | RA, TC (1m, 2m) | 30S ribosomal protein S13 | polymer | 116 | 13237.4 | 2 | UniProt (P80377) Pfam (PF00416) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 45 | SA, UC (1n, 2n) | 30S ribosomal protein S14 type Z | polymer | 60 | 7027.5 | 2 | UniProt (Q5SHQ1) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 46 | TA, VC (1o, 2o) | 30S ribosomal protein S15 | polymer | 88 | 10447.2 | 2 | UniProt (Q5SJ76) Pfam (PF00312) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 47 | UA, WC (1p, 2p) | 30S ribosomal protein S16 | polymer | 82 | 9795.4 | 2 | UniProt (Q5SJH3) Pfam (PF00886) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 48 | VA, XC (1q, 2q) | 30S ribosomal protein S17 | polymer | 99 | 11722.9 | 2 | UniProt (Q5SHP7) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 49 | WA, YC (1r, 2r) | 30S ribosomal protein S18 | polymer | 68 | 7897.5 | 2 | UniProt (Q5SLQ0) Pfam (PF01084) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 50 | XA, ZC (1s, 2s) | 30S ribosomal protein S19 | polymer | 83 | 9456.0 | 2 | UniProt (Q5SHP2) Pfam (PF00203) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 51 | AD, YA (1t, 2t) | 30S ribosomal protein S20 | polymer | 98 | 10876.1 | 2 | UniProt (P80380) Pfam (PF01649) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 52 | BD, ZA (1u, 2u) | 30S ribosomal protein Thx | polymer | 23 | 2831.3 | 2 | UniProt (Q5SIH3) Pfam (PF17070) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | S31 |
| 53 | AB, CD (1x, 2x) | Ribosome-associated inhibitor A | polymer | 97 | 10964.6 | 2 | UniProt (P0AD49) Pfam (PF02482) | Escherichia coli (strain K12) | Protein Y,SpotY,pY |
| 54 | BB, DD (1y, 2y) | Metalnikowin I | polymer | 10 | 1245.4 | 2 | Palomena prasina | ||
| 55 | AAA, AAB, AAC, ABA, ABC... (1A, 1a, 2A, 2B, 2E...) | MAGNESIUM ION | non-polymer | 24.3 | 2419 | Chemie (MG) | |||
| 56 | JNA, SGC (1B, 2A) | ADENOSINE-5'-MONOPHOSPHATE | non-polymer | 347.2 | 2 | Chemie (A) | |||
| 57 | ABB, BRA, CKC, GKC, HKC... (1n, 14, 24, 25, 26...) | ZINC ION | non-polymer | 65.4 | 12 | Chemie (ZN) | |||
| 58 | FSC, LAB (2d, 1d) | IRON/SULFUR CLUSTER | non-polymer | 351.6 | 2 | Chemie (SF4) | |||
| 59 | ATC, AUC, AVC, BTC, BUC... (1G, 1l, 26, 1H, 1m...) | water | water | 18.0 | 4534 | Chemie (HOH) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 108 |
| Total formula weight | 4307334.0 | |
| Non-Polymers* | Number of molecules | 2435 |
| Total formula weight | 60976.4 | |
| All* | Total formula weight | 4368310.5 |
