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Shine–Dalgarno sequence

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210:, and rabbit cells are identical: GAUCAUUA -3'OH. The conservation of this sequence between such distantly related eukaryotes implied that this nucleotide tract played an important role in the cell. Since this conserved sequence contained the complement of each of the three eukaryotic termination codons (UAA, UAG and UGA) it was proposed to have a role in the termination of protein synthesis in eukaryotes. A similar role for the 3' end of 16S rRNA in recognising termination triplets in 222:, a class of viruses that infect bacteria, the sequence coding for the first few amino acids often contains termination triplets in the two unused reading frames. In a commentary on this paper, it was noted that complementary base pairing with the 3'-terminus of 16S rRNA might serve to abort peptide bond formation after out-of-phase initiation. 890:
Cicek Mustafa, Mutlu Ozal, Erdemir Aysegul, Ozkan Ebru, Saricay Yunus, Turgut-Balik Dilek (2013). "Single Mutation in Shine-Dalgarno-Like Sequence Present in the Amino Terminal of Lactate Dehydrogenase of Plasmodium Effects the Production of an Eukaryotic Protein Expressed in a Prokaryotic System".
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Given the complementary relationship between rRNA and the Shine–Dalgarno sequence in mRNA, it was proposed that the sequence at the 3'-end of the rRNA determines the capacity of the prokaryotic ribosome to translate a particular gene in an mRNA. Base pairing between the 3'-end of the rRNA and the
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Shine–Dalgarno sequence in mRNA is a mechanism by which the cell can distinguish between initiator AUGs and internal and/or out-of-frame AUG sequences. The degree of base pairing also plays a role in determining the rate of initiation at different AUG initiator codons.
202:, the 3'-end of the small 18S rRNA may play a role in the termination of protein synthesis by complementary base pairing with termination codons. This came from their observation that the 3' terminal sequences of 18S rRNA from 237:
in prokaryotes. This change is due to a reduced or increased mRNA-ribosome pairing efficiency, as evidenced by the fact that compensatory mutations in the 3'-terminal 16S rRNA sequence can restore translation.
186:. Many studies have confirmed that base pairing between the Shine–Dalgarno sequence in mRNA and the 3' end of 16S rRNA is of prime importance for initiation of translation by bacterial ribosomes. 1913: 501:"How ribosomes select initiator regions in mRNA: base pair formation between the 3'-terminus of 16S rRNA and the mRNA during the initiation of protein synthesis in Escherichia coli" 646:"Terminal-sequence studies of high-molecular-weight ribonucleic acid. The reaction of periodate-oxidized ribonucleosides, 5'-ribonucleotides and ribonucleic acid with isoniazid" 1564: 1388: 934: 975: 421:(1973). "Occurrence of heat-dissociable ribosomal RNA in insects: the presence of three polynucleotide chains in 26S RNA from cultured Aedes aegypti cells". 1943: 1953: 1690: 1990: 1986: 2365: 2360: 2355: 2350: 2340: 2320: 2315: 2305: 2295: 2275: 2270: 2265: 2255: 2250: 2245: 2240: 2230: 2220: 2215: 2210: 2205: 1982: 214:
was proposed in 1974 by Shine and Dalgarno on the basis of complementarity relationships between the 3'-terminal UUA-OH in 16S rRNA and
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Alberts B, Bray D, Lewis J, Raff M, Roberts K, Watson JD (1994) The Molecular Biology of the Cell (3rd ed.) pp 237, 461.
370:"Terminal-sequence studies of high-molecular-weight ribonucleic acid. The 3'-termini of rabbit reticulocyte ribosomal RNA" 51: 2345: 2335: 2330: 2325: 2310: 2300: 2290: 2285: 2280: 2260: 2235: 2225: 2200: 2195: 2190: 2185: 2180: 2165: 1114: 961: 829:
Hale WG, Margham JP, Saunders VA eds (1995) Collins Dictionary of Biology, (2nd ed) Shine-Dalgarno (SD) sequence. p 565.
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Pieczenik G, Model P, Robertson HD (1974). "Sequence and symmetry in ribosome binding sites of bacteriophage f1RNA".
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Benelli, D; Londei, P (January 2011). "Translation initiation in Archaea: conserved and domain-specific features".
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may add amino acids in sequence as dictated by the codons, moving downstream from the translational start site.
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Dalgarno L, Shine J (1973). "Conserved terminal sequence in 18S rRNA may represent terminator anticodons".
2145: 1000: 43: 992: 988: 928: 257: 234: 170: 948: 2001: 1961: 996: 984: 741: 567: 512: 262: 1526: 182:, which is found upstream of the start codon AUG in a number of mRNAs found in viruses that affect 178:. They proposed that these ribosomal nucleotides recognize the complementary purine-rich sequence 916: 878: 591: 481: 315: 94: 771:"Interference with phage lambda development by the small subunit of the phage 21 terminase, gp1" 1672: 1489: 1016: 908: 870: 800: 710: 675: 626: 583: 540: 473: 438: 399: 350: 307: 157: 149:
Using a method developed by Hunt, Shine and Dalgarno showed that the nucleotide tract at the
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Shine J, Dalgarno L (1975). "Determinant of cistron specificity in bacterial ribosomes".
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Dahlberg A E (1989). "The functional role of ribosomal RNA in protein synthesis".
2589: 161: 86: 55: 2594: 904: 856: 303: 287: 199: 165: 129: 118: 1681: 525: 251: 125: 912: 874: 679: 622: 354: 311: 288:"Shine-Dalgarno sequence of bacteriophage T4: GAGG prevails in early genes" 150: 825:(3rd ed.). John Wiley and Sons Inc. pp. 1321–1322 and 1342–1343. 804: 714: 630: 544: 477: 442: 403: 1596: 1591: 1586: 587: 230: 219: 78: 59: 841:"Translation initiation: variations in the mechanism can be anticipated" 1317: 346: 82: 661: 385: 2551: 2541: 2526: 2516: 2506: 2501: 2496: 2486: 2481: 2461: 2456: 2436: 2431: 1608: 1581: 1569: 1442: 1398: 1393: 1376: 1371: 1359: 1354: 1349: 1282: 1233: 1228: 1223: 1218: 1213: 1198: 1193: 1181: 1157: 1152: 754: 729: 579: 949:
https://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=eurekah.section.19320
250:, the sequence that targets the ribosome to the initiation codon in 2421: 2411: 2406: 2401: 2386: 2131: 1938: 1660: 1655: 1613: 1603: 1559: 1511: 1506: 1449: 1437: 1410: 1405: 1383: 1366: 1344: 1322: 1312: 1307: 1302: 1297: 1292: 1287: 1277: 1272: 1267: 1262: 1208: 1203: 1140: 1066: 1645: 1620: 1541: 1536: 1531: 1521: 1516: 1471: 1461: 1432: 1422: 1334: 1252: 1240: 1171: 1145: 1135: 1125: 832:
Lewin, B. (1994) Genes V. Oxford University Press. pp 179, 269.
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by aligning the ribosome with the start codon. Once recruited,
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in the Shine–Dalgarno sequence can reduce or increase
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Ribosomal binding site in prokaryotic messenger RNA
969: 8: 933:: CS1 maint: multiple names: authors list ( 198:In 1973 Dalgarno and Shine proposed that in 124:The Shine–Dalgarno sequence was proposed by 2150: 1686: 1677: 1494: 1119: 1021: 1012: 976: 962: 954: 864: 794: 753: 669: 534: 524: 393: 77:The Shine–Dalgarno sequence is common in 58:AUG. The RNA sequence helps recruit the 273: 926: 7: 845:Cellular and Molecular Life Sciences 281: 279: 277: 50:, generally located around 8 bases 25: 335:Biochemical Society Transactions 787:10.1128/jb.173.9.2733-2738.1991 730:"Signals for protein synthesis" 226:Sequence and protein expression 160:(rRNA) (that is, the end where 168:and has the specific sequence 1: 839:Malys N, McCarthy JE (2011). 85:. It is also present in some 707:10.1016/0022-2836(74)90368-4 695:Journal of Molecular Biology 499:Steitz J A, Jakes K (1975). 470:10.1016/0092-8674(89)90122-0 435:10.1016/0022-2836(73)90528-7 423:Journal of Molecular Biology 2641: 821:Voet D and Voet J (2004). 93:transcripts. The six-base 46:in bacterial and archaeal 2580:Aminoacyl tRNA synthetase 905:10.1007/s12033-012-9602-z 857:10.1007/s00018-010-0588-z 304:10.1007/s11033-011-0707-4 292:Molecular Biology Reports 2604:Kozak consensus sequence 248:Kozak consensus sequence 218:termination codons. In 208:Saccharomyces cerevisiae 2600:Shine-Dalgarno sequence 893:Molecular Biotechnology 775:Journal of Bacteriology 526:10.1073/pnas.72.12.4734 204:Drosophila melanogaster 194:Translation termination 145:Translation start sites 18:Shine-Dalgarno Sequence 623:10.1038/newbio245261a0 505:Proc Natl Acad Sci USA 44:ribosomal binding site 258:Bacterial translation 2625:Protein biosynthesis 1500:​Mitochondrial 985:Protein biosynthesis 263:Archaeal translation 746:1976Natur.260...12A 650:Biochemical Journal 572:1975Natur.254...34S 517:1975PNAS...72.4734S 374:Biochemical Journal 66:(mRNA) to initiate 1673:Ribosomal Proteins 769:Johnson G (1991). 347:10.1042/BST0390089 95:consensus sequence 2612: 2611: 2568: 2567: 2564: 2563: 2560: 2559: 2140: 2139: 1629: 1628: 1553:​Eukaryotic 1490:Elongation factor 1484: 1483: 1480: 1479: 1017:Initiation factor 662:10.1042/bj0950541 644:Hunt J A (1965). 511:(12): 4734–4738. 386:10.1042/bj1200353 368:Hunt J A (1970). 158:16S ribosomal RNA 68:protein synthesis 16:(Redirected from 2632: 2151: 1687: 1678: 1552: 1499: 1495: 1465: 1426: 1338: 1256: 1175: 1129: 1120: 1022: 1013: 978: 971: 964: 955: 938: 932: 924: 886: 868: 826: 809: 808: 798: 781:(9): 2733–2738. 766: 760: 759: 757: 755:10.1038/260012a0 725: 719: 718: 690: 684: 683: 673: 641: 635: 634: 617:(148): 261–262. 606: 600: 599: 580:10.1038/254034a0 555: 549: 548: 538: 528: 496: 490: 489: 453: 447: 446: 414: 408: 407: 397: 365: 359: 358: 330: 324: 323: 286:Malys N (2012). 283: 181: 177: 110: 104:Escherichia coli 21: 2640: 2639: 2635: 2634: 2633: 2631: 2630: 2629: 2615: 2614: 2613: 2608: 2556: 2370: 2136: 1948: 1667: 1625: 1546: 1476: 1459: 1454: 1420: 1415: 1332: 1327: 1250: 1245: 1169: 1164: 1123: 1109: 1076: 1048: 1004: 982: 945: 925: 889: 851:(6): 991–1003. 838: 820: 817: 815:Further reading 812: 768: 767: 763: 740:(5546): 12–13. 727: 726: 722: 692: 691: 687: 643: 642: 638: 608: 607: 603: 566:(5495): 34–38. 557: 556: 552: 498: 497: 493: 455: 454: 450: 416: 415: 411: 367: 366: 362: 332: 331: 327: 285: 284: 275: 271: 244: 228: 196: 179: 169: 166:pyrimidine-rich 147: 142: 108: 81:, but rarer in 28: 23: 22: 15: 12: 11: 5: 2638: 2636: 2628: 2627: 2617: 2616: 2610: 2609: 2607: 2606: 2597: 2592: 2587: 2582: 2576: 2574: 2573:Other concepts 2570: 2569: 2566: 2565: 2562: 2561: 2558: 2557: 2555: 2554: 2549: 2544: 2539: 2534: 2529: 2524: 2519: 2514: 2509: 2504: 2499: 2494: 2489: 2484: 2479: 2474: 2469: 2464: 2459: 2454: 2449: 2444: 2439: 2434: 2429: 2424: 2419: 2414: 2409: 2404: 2399: 2394: 2389: 2384: 2378: 2376: 2372: 2371: 2369: 2368: 2363: 2358: 2353: 2348: 2343: 2338: 2333: 2328: 2323: 2318: 2313: 2308: 2303: 2298: 2293: 2288: 2283: 2278: 2273: 2268: 2263: 2258: 2253: 2248: 2243: 2238: 2233: 2228: 2223: 2218: 2213: 2208: 2203: 2198: 2193: 2188: 2183: 2178: 2173: 2168: 2163: 2157: 2155: 2148: 2142: 2141: 2138: 2137: 2135: 2134: 2129: 2124: 2119: 2114: 2109: 2104: 2099: 2094: 2089: 2084: 2079: 2074: 2069: 2064: 2059: 2054: 2049: 2044: 2039: 2034: 2029: 2024: 2019: 2014: 2009: 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612: 605: 602: 597: 593: 589: 585: 581: 577: 573: 569: 565: 561: 554: 551: 546: 542: 537: 532: 527: 522: 518: 514: 510: 506: 502: 495: 492: 487: 483: 479: 475: 471: 467: 463: 459: 452: 449: 444: 440: 436: 432: 428: 424: 420: 413: 410: 405: 401: 396: 391: 387: 383: 379: 375: 371: 364: 361: 356: 352: 348: 344: 340: 336: 329: 326: 321: 317: 313: 309: 305: 301: 297: 293: 289: 282: 280: 278: 274: 268: 264: 261: 259: 256: 253: 249: 246: 245: 241: 239: 236: 232: 225: 223: 221: 217: 213: 209: 205: 201: 193: 191: 187: 185: 175: 172: 167: 163: 159: 156: 152: 144: 139: 137: 135: 134:Lynn Dalgarno 131: 127: 122: 120: 117: 115: 111:dominates in 106: 105: 100: 96: 92: 91:mitochondrial 88: 84: 80: 75: 73: 69: 65: 64:messenger RNA 61: 57: 53: 49: 48:messenger RNA 45: 41: 37: 33: 19: 1652:Class 2/RF3 1460: 1421: 1333: 1251: 1170: 1124: 929:cite journal 896: 892: 848: 844: 823:Biochemistry 822: 778: 774: 764: 737: 733: 723: 698: 694: 688: 653: 649: 639: 614: 610: 604: 563: 559: 553: 508: 504: 494: 461: 457: 451: 429:(1): 57–72. 426: 422: 412: 377: 373: 363: 341:(1): 89–93. 338: 334: 328: 295: 291: 229: 215: 211: 207: 203: 197: 188: 183: 173: 154: 148: 123: 113: 102: 98: 76: 39: 35: 31: 29: 2590:Start codon 2375:28S subunit 2154:39S subunit 1954:40S subunit 1691:60S subunit 1682:Cytoplasmic 1146:SUI1 family 989:translation 298:(1): 33–9. 235:translation 164:begins) is 162:translation 140:Recognition 128:scientists 119:early genes 87:chloroplast 56:start codon 2595:Stop codon 1939:RRP15-like 1749:RPL10-like 1498:Bacterial/ 1115:Eukaryotic 1001:eukaryotic 419:Dalgarno L 269:References 252:Eukaryotes 200:eukaryotes 130:John Shine 126:Australian 1551:Archaeal/ 1026:Bacterial 993:bacterial 417:Shine J, 231:Mutations 136:in 1973. 2619:Category 1642:Class 1 1082:Archaeal 1009:Proteins 997:archaeal 921:45230872 913:23011788 883:31720000 875:21076851 866:11115079 680:14340106 486:36679385 355:21265752 320:17854788 312:21533668 242:See also 220:F1 phage 116:virus T4 79:bacteria 60:ribosome 52:upstream 40:sequence 1944:RSL24D1 1621:a/eEF-2 1560:a/eEF-1 805:1826903 742:Bibcode 715:4375722 671:1214355 631:4202225 596:4162567 568:Bibcode 545:1107998 513:Bibcode 478:2655923 443:4197338 404:4321896 395:1179605 212:E.coli 184:E. coli 180:AGGAGGU 174:ACCUCCU 155:E. coli 114:E. coli 83:archaea 62:to the 54:of the 2112:RPS27A 2052:RPS15A 1991:RPS4Y2 1987:RPS4Y1 1981:RPS4 ( 1899:RPL37A 1889:RPL36A 1879:RPL35A 1839:RPL27A 1819:RPL23A 1794:RPL18A 1769:RPL13A 1744:RPL10A 1199:γ 1194:β 1187:kinase 1182:α 919:  911:  881:  873:  863:  803:  796:207852 793:  734:Nature 713:  678:  668:  629:  611:Nature 594:  588:803646 586:  560:Nature 543:  536:388805 533:  484:  476:  441:  402:  392:  353:  318:  310:  216:E.coli 151:3' end 99:AGGAGG 2382:MRPS1 2161:MRPL1 2132:RACK1 2127:RPS30 2122:RPS29 2117:RPS28 2107:RPS27 2102:RPS26 2097:RPS25 2092:RPS24 2087:RPS23 2082:RPS21 2077:RPS20 2072:RPS19 2067:RPS18 2062:RPS17 2057:RPS16 2047:RPS15 2042:RPS14 2037:RPS13 2032:RPS12 2027:RPS11 2022:RPS10 1983:RPS4X 1977:RPS3A 1934:RPLP2 1929:RPLP1 1924:RPLP0 1919:RPL41 1914:RPL40 1909:RPL39 1904:RPL38 1894:RPL37 1884:RPL36 1874:RPL35 1869:RPL34 1864:RPL32 1859:RPL31 1854:RPL30 1849:RPL29 1844:RPL28 1834:RPL27 1829:RPL26 1824:RPL24 1814:RPL23 1809:RPL22 1804:RPL21 1799:RPL19 1789:RPL18 1784:RPL17 1779:RPL15 1774:RPL14 1764:RPL13 1759:RPL12 1754:RPL11 1739:RPL10 1724:RPL7A 1661:GSPT2 1656:GSPT1 1512:EF-Ts 1507:EF-Tu 1438:EIF5A 1241:eIF2D 1209:eIF2B 1204:eIF2A 1153:eIF1A 1072:MTIF3 1067:MTIF2 1062:MTIF1 917:S2CID 879:S2CID 592:S2CID 482:S2CID 316:S2CID 101:; in 42:is a 2017:RPS9 2012:RPS8 2007:RPS7 2002:RPS6 1997:RPS5 1972:RPS3 1967:RPS2 1962:RPSA 1734:RPL9 1729:RPL8 1719:RPL7 1714:RPL6 1709:RPL5 1704:RPL4 1699:RPL3 1646:eRF1 1542:GFM2 1537:GFM1 1532:TSFM 1527:EF-P 1522:EF-4 1517:EF-G 1472:EIF6 1462:eIF6 1433:EIF5 1423:eIF5 1335:eIF4 1253:eIF3 1172:eIF2 1136:eIF1 1126:eIF1 1105:aIF6 1100:aIF5 1095:aIF2 1090:aIF1 935:link 909:PMID 871:PMID 801:PMID 711:PMID 676:PMID 627:PMID 584:PMID 541:PMID 474:PMID 458:Cell 439:PMID 400:PMID 351:PMID 308:PMID 132:and 109:GAGG 89:and 72:tRNA 30:The 1044:IF3 1039:IF2 1034:IF1 901:doi 861:PMC 853:doi 791:PMC 783:doi 779:173 750:doi 738:260 703:doi 666:PMC 658:doi 619:doi 615:245 576:doi 564:254 531:PMC 521:doi 466:doi 431:doi 390:PMC 382:doi 378:120 343:doi 300:doi 153:of 97:is 2621:: 2552:35 2547:34 2542:33 2537:32 2532:31 2527:30 2522:29 2517:28 2512:27 2507:26 2502:25 2497:24 2492:23 2487:22 2482:21 2477:20 2472:19 2467:18 2462:17 2457:16 2452:15 2447:14 2442:13 2437:12 2432:11 2427:10 2366:42 2361:41 2356:40 2351:39 2346:38 2341:37 2336:36 2331:35 2326:34 2321:33 2316:32 2311:31 2306:30 2301:29 2296:28 2291:27 2286:26 2281:25 2276:24 2271:23 2266:22 2261:21 2256:20 2251:19 2246:18 2241:17 2236:16 2231:15 2226:14 2221:13 2216:12 2211:11 2206:10 1989:, 1985:, 1597:P3 1592:P2 1587:P1 1565:A1 1450:5B 1367:E1 999:, 995:, 987:: 931:}} 927:{{ 915:. 907:. 897:54 895:. 877:. 869:. 859:. 849:68 847:. 843:. 799:. 789:. 777:. 773:. 748:. 736:. 732:. 709:. 699:90 697:. 674:. 664:. 654:95 652:. 648:. 625:. 613:. 590:. 582:. 574:. 562:. 539:. 529:. 519:. 509:72 507:. 503:. 480:. 472:. 462:57 460:. 437:. 427:75 425:. 398:. 388:. 376:. 372:. 349:. 339:39 337:. 314:. 306:. 296:39 294:. 290:. 276:^ 206:, 176:UA 121:. 38:) 36:SD 2602:/ 2422:9 2417:8 2412:7 2407:6 2402:5 2397:4 2392:3 2387:2 2201:9 2196:8 2191:7 2186:6 2181:5 2176:4 2171:3 2166:2 1993:) 1614:G 1609:E 1604:D 1582:B 1575:3 1570:2 1443:2 1411:H 1406:B 1399:3 1394:2 1389:1 1384:G 1377:3 1372:2 1360:3 1355:2 1350:1 1345:A 1323:M 1318:L 1313:K 1308:J 1303:I 1298:H 1293:G 1288:F 1283:E 1278:D 1273:C 1268:B 1263:A 1234:5 1229:4 1224:3 1219:2 1214:1 1158:Y 1141:B 1003:) 991:( 977:e 970:t 963:v 937:) 923:. 903:: 885:. 855:: 807:. 785:: 758:. 752:: 744:: 717:. 705:: 682:. 660:: 633:. 621:: 598:. 578:: 570:: 547:. 523:: 515:: 488:. 468:: 445:. 433:: 406:. 384:: 357:. 345:: 322:. 302:: 254:. 171:Y 34:( 20:)

Index

Shine-Dalgarno Sequence
ribosomal binding site
messenger RNA
upstream
start codon
ribosome
messenger RNA
protein synthesis
tRNA
bacteria
archaea
chloroplast
mitochondrial
consensus sequence
Escherichia coli
E. coli virus T4
early genes
Australian
John Shine
Lynn Dalgarno
3' end
16S ribosomal RNA
translation
pyrimidine-rich
Y
eukaryotes
F1 phage
Mutations
translation
Kozak consensus sequence

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