9PZG Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9PZG_001 | 1/A/12:22 | No text annotation | geometric HL_8CRE_191 HL_73535.1 | |
| HL_9PZG_003 | 1/A/158:163 | GNRA | geometric HL_1Q96_001 HL_34789.2 | |
| HL_9PZG_004 | 1/A/186:191 | GNRA | geometric HL_4WF9_016 HL_34789.2 | |
| HL_9PZG_006 | 1/A/259:267 | No text annotation | geometric HL_8B0X_005 HL_87268.1 | |
| HL_9PZG_007 | 1/A/296:301 | No text annotation | geometric HL_8B0X_006 HL_34789.2 | |
| HL_9PZG_008 | 1/A/320:333 | No text annotation | geometric HL_4LFB_008 HL_39665.1 | |
| HL_9PZG_009 | 1/A/342:347 | UNCG | geometric HL_6QN3_003 HL_61337.2 | |
| HL_9PZG_010 | 1/A/379:384 | GNRA | geometric HL_4Y1M_003 HL_34789.2 | |
| HL_9PZG_011 | 1/A/419:424 | No text annotation | ||
| HL_9PZG_012 | 1/A/462:470 | No text annotation | geometric HL_8B0X_011 HL_98423.2 | |
| HL_9PZG_013 | 1/A/522:527 | GNRA variation | geometric HL_4LFB_033 HL_34789.2 | |
| HL_9PZG_014 | 1/A/617:623 | No text annotation | geometric HL_8B0X_013 HL_86621.1 | |
| HL_9PZG_015 | 1/A/689:698 | No text annotation | geometric HL_8CRE_210 HL_38491.2 | |
| HL_9PZG_016 | 1/A/726:731 | GNRA | geometric HL_4LFB_016 HL_34789.2 | |
| HL_9PZG_017 | 1/A/786:796 | No text annotation | geometric HL_4UYK_001 HL_14063.2 | |
| HL_9PZG_019 | 1/A/862:867 | No text annotation | geometric HL_8B0X_017 HL_34789.2 | |
| HL_9PZG_020 | 1/A/897:902 | GNRA | geometric HL_4LFB_020 HL_34789.2 | |
| HL_9PZG_024 | 1/A/1076:1081 | No text annotation | geometric HL_8B0X_021 HL_34789.2 | |
| HL_9PZG_025 | 1/A/1089:1096 | T-loop related | geometric HL_3IVK_005 HL_67772.1 | |
| HL_9PZG_032 | 1/A/1515:1520 | Other HL | geometric HL_9DFE_063 HL_64036.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9PZG_002 | No text annotation | ||
| HL_9PZG_005 | UNCG | ||
| HL_9PZG_018 | No text annotation | ||
| HL_9PZG_021 | No text annotation | ||
| HL_9PZG_022 | GNRA | ||
| HL_9PZG_023 | Mini UNCG | ||
| HL_9PZG_026 | No text annotation | ||
| HL_9PZG_027 | No text annotation | ||
| HL_9PZG_028 | No text annotation | ||
| HL_9PZG_029 | No text annotation | ||
| HL_9PZG_030 | No text annotation | ||
| HL_9PZG_031 | UNCG |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9PZG_001 | 1/A/30:32, 1/A/552:553 | No text annotation | geometric IL_8B0X_001 IL_28408.2 | |
| IL_9PZG_002 | 1/A/44:45, 1/A/396:398 | No text annotation | geometric IL_8B0X_002 IL_14190.2 | |
| IL_9PZG_003 | 1/A/47:52, 1/A/359:361 | No text annotation | geometric IL_8B0X_003 IL_32983.2 | |
| IL_9PZG_004 | 1/A/54:56, 1/A/356:357 | Minor groove platform | geometric IL_8CRE_394 IL_34520.2 | |
| IL_9PZG_005 | 1/A/63:66, 1/A/103:104 | Multiple bulged bases | geometric IL_4V9F_021 IL_71421.2 | |
| IL_9PZG_006 | 1/A/67:69, 1/A/99:102 | No text annotation | geometric IL_8B0X_006 IL_82096.1 | |
| IL_9PZG_007 | 1/A/70:73, 1/A/97:98 | No text annotation | geometric IL_8B0X_007 IL_87975.1 | |
| IL_9PZG_008 | 1/A/75:76, 1/A/93:95 | No text annotation | geometric IL_8B0X_008 IL_28408.2 | |
| IL_9PZG_009 | 1/A/128:131, 1/A/231:233 | No text annotation | geometric IL_8B0X_009 IL_76400.1 | |
| IL_9PZG_010 | 1/A/132:136, 1/A/227:230 | No text annotation | geometric IL_8B0X_010 IL_60988.2 | |
| IL_9PZG_011 | 1/A/144:146, 1/A/176:178 | No text annotation | geometric IL_8B0X_011 IL_10892.2 | |
| IL_9PZG_012 | 1/A/147:153, 1/A/168:175 | No text annotation | geometric IL_8B0X_012 IL_24485.1 | |
| IL_9PZG_014 | 1/A/242:247, 1/A/277:284 | Kink-turn with non-sequential stacking | geometric IL_4LFB_011 IL_46174.4 | |
| IL_9PZG_015 | 1/A/249:252, 1/A/274:275 | No text annotation | geometric IL_8B0X_014 IL_22002.1 | |
| IL_9PZG_016 | 1/A/292:293, 1/A/304:308 | C-loop | geometric IL_4LFB_013 IL_06671.1 | |
| IL_9PZG_017 | 1/A/367:369, 1/A/392:393 | No text annotation | geometric IL_8B0X_016 IL_97561.2 | |
| IL_9PZG_018 | 1/A/371:375, 1/A/389:390 | No text annotation | geometric IL_8B0X_017 IL_26900.1 | |
| IL_9PZG_019 | 1/A/375:376, 1/A/387:389 | No text annotation | geometric IL_8B0X_018 IL_28408.2 | |
| IL_9PZG_020 | 1/A/409:416, 1/A/427:433 | No text annotation | geometric IL_8B0X_019 IL_62329.1 | |
| IL_9PZG_021 | 1/A/440:442, 1/A/492:497 | No text annotation | geometric IL_8B0X_020 IL_02111.1 | |
| IL_9PZG_022 | 1/A/446:450, 1/A/483:488 | No text annotation | geometric IL_8B0X_021 IL_82100.1 | |
| IL_9PZG_023 | 1/A/450:455, 1/A/477:483 | No text annotation | ||
| IL_9PZG_024 | 1/A/504:511, 1/A/540:541 | SSU/LSU pseudoknot | geometric IL_4LFB_020 IL_11411.1 | |
| IL_9PZG_025 | 1/A/515:521, 1/A/528:536 | No text annotation | geometric IL_8P9A_404 IL_52042.1 | |
| IL_9PZG_026 | 1/A/569:575, 1/A/880:881 | No text annotation | geometric IL_8B0X_025 IL_20847.1 | |
| IL_9PZG_027 | 1/A/580:584, 1/A/757:761 | No text annotation | geometric IL_8B0X_026 IL_05821.1 | |
| IL_9PZG_028 | 1/A/594:596, 1/A/644:645 | No text annotation | geometric IL_8B0X_027 IL_48076.8 | |
| IL_9PZG_029 | 1/A/597:598, 1/A/640:643 | Major groove minor groove platform; mini C-loop | geometric IL_1S03_003 IL_73108.2 | |
| IL_9PZG_030 | 1/A/605:612, 1/A/628:633 | No text annotation | geometric IL_8B0X_029 IL_04211.1 | |
| IL_9PZG_031 | 1/A/654:655, 1/A/751:754 | No text annotation | geometric IL_8B0X_030 IL_74641.2 | |
| IL_9PZG_032 | 1/A/658:659, 1/A/746:748 | Single stack bend | geometric IL_4LFB_041 IL_15011.2 | |
| IL_9PZG_033 | 1/A/662:666, 1/A/740:743 | No text annotation | geometric IL_8B0X_032 IL_15225.2 | |
| IL_9PZG_034 | 1/A/673:677, 1/A/713:717 | No text annotation | geometric IL_8B0X_176 IL_71154.2 | |
| IL_9PZG_035 | 1/A/684:688, 1/A/699:706 | No text annotation | geometric IL_8B0X_034 IL_71972.1 | |
| IL_9PZG_036 | 1/A/774:778, 1/A/804:805 | Left turn | geometric IL_4LFB_032 IL_29346.3 | |
| IL_9PZG_037 | 1/A/779:783, 1/A/799:803 | No text annotation | geometric IL_8B0X_036 IL_05821.1 | |
| IL_9PZG_038 | 1/A/887:894, 1/A/905:910 | No text annotation | geometric IL_8B0X_037 IL_84044.1 | |
| IL_9PZG_039 | 1/A/922:923, 1/A/1393:1395 | Single bulged A | geometric IL_9DE7_002 IL_14190.2 | |
| IL_9PZG_040 | 1/A/924:928, 1/A/1389:1392 | No text annotation | ||
| IL_9PZG_048 | 1/A/1060:1061, 1/A/1195:1197 | Single bulged A | geometric IL_8CRE_455 IL_14190.2 | |
| IL_9PZG_049 | 1/A/1061:1063, 1/A/1193:1195 | No text annotation | geometric IL_8B0X_049 IL_68118.2 | |
| IL_9PZG_057 | 1/A/1412:1414, 1/A/1486:1488 | No text annotation | geometric IL_8GLP_025 IL_01003.2 | |
| IL_9PZG_058 | 1/A/1416:1419, 1/A/1481:1484 | No text annotation | geometric IL_8GLP_052 IL_58355.2 | |
| IL_9PZG_059 | 1/A/1430:1435, 1/A/1466:1470 | No text annotation | geometric IL_8GLP_051 IL_47352.2 | |
| IL_9PZG_060 | 1/A/1440:1442, 1/A/1460:1461 | No text annotation | geometric IL_8B0X_063 IL_34520.2 | |
| IL_9PZG_061 | 1/A/1445:1448, 1/A/1455:1457 | No text annotation | geometric IL_8B0X_064 IL_05502.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9PZG_013 | No text annotation | ||
| IL_9PZG_041 | No text annotation | ||
| IL_9PZG_042 | No text annotation | ||
| IL_9PZG_043 | Minor groove platform | ||
| IL_9PZG_044 | Single stack bend | ||
| IL_9PZG_045 | No text annotation | ||
| IL_9PZG_046 | Isolated cWS basepair | ||
| IL_9PZG_047 | Minor groove platform | ||
| IL_9PZG_050 | No text annotation | ||
| IL_9PZG_051 | No text annotation | ||
| IL_9PZG_052 | No text annotation | ||
| IL_9PZG_053 | No text annotation | ||
| IL_9PZG_054 | No text annotation | ||
| IL_9PZG_055 | No text annotation | ||
| IL_9PZG_056 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9PZG_001 | 1/A/46:47, 1/A/361:367, 1/A/393:395 | No text annotation | geometric J3_8B0X_001 J3_58657.1 | |
| J3_9PZG_002 | 1/A/46:52, 1/A/359:367, 1/A/393:395 | No text annotation | geometric J3_8B0X_027 J3_63856.1 | |
| J3_9PZG_003 | 1/A/586:588, 1/A/651:654, 1/A/754:755 | No text annotation | geometric J3_8B0X_002 J3_01633.1 | |
| J3_9PZG_004 | 1/A/586:588, 1/A/651:655, 1/A/751:755 | No text annotation | geometric J3_8B0X_028 J3_17385.5 | |
| J3_9PZG_005 | 1/A/672:673, 1/A/717:725, 1/A/732:734 | No text annotation | geometric J3_8B0X_003 J3_74074.1 | |
| J3_9PZG_006 | 1/A/826:829, 1/A/857:861, 1/A/868:874 | No text annotation | geometric J3_8B0X_004 J3_02285.1 | |
| J3_9PZG_013 | 1/A/1063:1068, 1/A/1107:1113, 1/A/1187:1193 | No text annotation | geometric J3_4LFB_007 J3_01343.1 | |
| J3_9PZG_014 | 1/A/1073:1074, 1/A/1083:1087, 1/A/1098:1102 | No text annotation | geometric J3_8CRE_083 J3_76043.4 | |
| J4_9PZG_001 | 1/A/115:122, 1/A/239:240, 1/A/286:289, 1/A/311:312 | No text annotation | ||
| J4_9PZG_002 | 1/A/142:144, 1/A/178:184, 1/A/193:198, 1/A/219:221 | No text annotation | ||
| J4_9PZG_003 | 1/A/575:577, 1/A/764:769, 1/A/810:821, 1/A/879:880 | No text annotation | ||
| J5_9PZG_001 | 1/A/36:39, 1/A/403:406, 1/A/436:440, 1/A/497:500, 1/A/545:548 | No text annotation | ||
| J5_9PZG_002 | 1/A/36:39, 1/A/403:406, 1/A/436:442, 1/A/492:500, 1/A/545:548 | No text annotation | ||
| J5_9PZG_003 | 1/A/58:61, 1/A/106:113, 1/A/314:316, 1/A/337:339, 1/A/350:354 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_9PZG_007 | No text annotation | ||
| J3_9PZG_008 | No text annotation | ||
| J3_9PZG_009 | No text annotation | ||
| J3_9PZG_010 | No text annotation | ||
| J3_9PZG_011 | No text annotation | ||
| J3_9PZG_012 | No text annotation | ||
| J3_9PZG_015 | No text annotation | ||
| J3_9PZG_016 | No text annotation | ||
| J3_9PZG_017 | No text annotation |
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