#D - ordering by discrepancy relative to the exemplar, #S - ordering by similarity (same as in the heat map). More
#D#SLoop idPDBDisc#Non-coreAnnotation 1 2 3 4 5 6 71-72-62-73-5
6213OUY0.45852 G12U13U14C15A16A17C20cWWtWHncWW
5923OVA0.44132 G12U13U14C15A16A17C20cWWtWHncWW
6132DR80.44802 G12U13U14C15G16A17C20cWWtWHncWW
5741J2B0.35822 G954U955U956C957A958A959C962cWWtWHntSH
5251J2B0.30812 G954U955U956C957A958A959C962cWWtWHntSH
4362NR00.22172 G53U54U55C56A57A58C61cWWtWH
3971GAX0.21312T-loop with 2 stacked bulged basesG952U953U954C955A956A957C960cWWntWH
3682NRE0.20172 G53U54U55C56A57A58C61cWWtWH
2292BTE0.15672 G53U54U55C56A57A58C61cWWtWH
10102BTE0.11662T-loop with 2 stacked bulged basesG53U54U55C56A57A58C61cWWtWH
6114AQ70.09672 G53U54U55C56A57A58C61cWWtWH
20121WZ20.15442T-loop with 2 stacked bulged basesG965U966U967C968G969A970C973cWWtWH
16131QRS0.13742 G53U54U55C56G57A58C61cWWtWH
13142CSX0.12912T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
8153L0U0.10702 G53U54U55C56G57A58C61cWWtWH
9162DU30.11202T-loop with 2 stacked bulged basesG952U953U954C955G956A957C960cWWntWH
5171J1U0.09342T-loop with 2 stacked bulged basesG554U555U556C557A558A559C562cWWtWH
7183W3S0.09962T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
3192ZUF0.08682 G953U954U955C956A957A958C961cWWtWH
1203RG50.00002 G53U54U55C56A57A58C61cWWtWH
2213ADD0.07872T-loop with 2 stacked bulged basesG53U54U55C56A57A58C61cWWtWH
4223ADC0.09302 G53U54U55C56A57A58C61cWWtWH
11232ZZM0.11692T-loop with 2 stacked bulged basesG53U54U55C56A57A58C61cWWtWH
35243AMU0.19822T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
32253A2K0.19072 G54U55U56C57G58A59C62cWWtWH
24262ZM50.16532 G53U54U55C56G57A58C61cWWtWH
18273AM10.15072T-loop with 2 stacked bulged basesG59U60U61C62G63A64C67cWWtWH
29282ZZN0.18182 G53U54U55C56A57A58C61cWWtWH
33292DER0.19202T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
30303TUP0.18602T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
26313EPH0.16752T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
12321QU20.12392T-loop with 2 stacked bulged basesG53U54U55C56A57A58C61cWWtWH
19332AZX0.15152 G553U554U555C556G557A558C561cWWtWH
14342CV10.13182 G553U554U555C556G557A558C561cWWtWH
27351U0B0.17792T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
17364GCW0.14112T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
31372D6F0.18912T-loop with 2 stacked bulged basesG953U954U955C956G957A958C961cWWtWH
23383AL00.16522T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
34392DU60.19482 G952U953U954C955G956A957C960cWWntWH
41403ICQ0.21582T-loop with 2 stacked bulged basesG53U54U55C56G57A58C61cWWtWH
37413F4G0.20652 G68U69G70A71A72A73C76cWWtWH
45424FRG0.22412T-loop with 2 bulged bases not stackedG28U29G30A31A32A33C36cWWtWH
40433F4G0.21442 G17U18G19A20A21A22C25cWWtWH
25444FRN0.16562 G28U29G30U31A32A33C36cWWtWH
21454A1B0.15512 A1488U1489G1490A1491G1492A1493U1496cWWtWH
15464FAW0.13332 G30U31G32A33G34A35C38cWWtWH
28474GXY0.18142T-loop with 2 stacked bulged basesG49U50G51C52A53A54C57cWWtWH
47483U5H0.23162 A1462U1463G1464A1465G1466A1467U1470cWWtWH
42493V2F0.22072 G1281U1282G1283A1284G1285A1286C1289cWWtWH
38501S720.20772 G1387U1388G1389A1390G1391A1392C1395cWWtWH
48512ZJR0.25372 G1294U1295G1296A1297G1298A1299C1302cWWtWH
46522QBG0.22592 G1281U1282G1283A1284A1285A1286C1289cWWtWH
51534GMA0.29762 G58U59G60A61G62A63C66cWWntWH
50544A1B0.27713 U664C665U666U667G668A669A673cWWntWH
49553U5H0.27013 U640C641U642U643G644A645A649cWWntWH
44562QBG0.22223 U566U567U568U569G570U571A575cWW
53572ZJR0.32503 U575A576U577U578G579A580A584cWW
54583V2F0.33673 U566A567U568U569G570A571A575cWW
55593VJR0.33882 G13U14U15C16G17A18C21cWWtWH
56603VJR0.34862 G13U14U15C16G17A18C21cWWtWH
60612ZNI0.44542T-loop with 2 stacked bulged basesG53U54G55A56A57A58C61cWWtWH
58622AKE0.39942 G53U54U55C56G57A58C61cWWtWH
63633Q1Q0.48012 G63U64U65C66G67A68C71cWWtWHncWW

3D structures

Complete motif including flanking bases
SequenceCounts
GUUCAAGUC11
GUUCGAUUC8
GUUCGAAUC8
GUUCAAAUC4
GUUCGAUCC4
GUGAGAAUC3
GUGAAAUUC3
GUUCAAUUC3
GUUCGAGUC3
UAUUGAAGCA2
UCUUGAAACA2
GUUCGACUC2
AUGAGAACU2
GUGAAAAGC1
UUUUGUAUAA1
GUGAAACUC1
GUGUAAUUC1
GUUCGAGCC1
GUGAGAGUC1
GUGCAAGUC1
GUGAGAACC1
Non-Watson-Crick part of the motif
SequenceCounts
UUCAAGU11
UUCGAAU8
UUCGAUU8
UUCAAAU4
UUCGAUC4
UGAGAAU3
UGAGAAC3
UGAAAUU3
UUCGAGU3
UUCAAUU3
UUCGACU2
AUUGAAGC2
CUUGAAAC2
UUUGUAUA1
UGAAACU1
UGCAAGU1
UGUAAUU1
UGAGAGU1
UUCGAGC1
UGAAAAG1

Release history

Release1.0
Date2013-03-04
StatusUpdated, 1 parent

Parent motifs

Parent motifCommon motif instancesOnly in HL_72498.5Only in the parent motif
HL_72498.4
Compare
HL_4A1B_015, HL_3L0U_003, HL_2AZX_003, HL_3F4G_001, HL_3V2F_018, HL_3VJR_001, HL_4A1B_030, HL_4GXY_002, HL_3V2F_030, HL_2DU3_003, HL_3ADC_004, HL_2ZUF_003, HL_2DER_006, HL_4FAW_001, HL_4GMA_002, HL_2D6F_006, HL_3AMU_003, HL_2ZJR_017, HL_3AL0_003, HL_2ZM5_003, HL_1QU2_003, HL_3U5H_014, HL_2QBG_034, HL_1S72_034, HL_2CSX_003, HL_2ZJR_032, HL_2NR0_004, HL_3TUP_003, HL_3ADD_004, HL_3ICQ_005, HL_2ZZN_003, HL_3VJR_002, HL_3A2K_003, HL_2CV1_006, HL_3AM1_004, HL_1WZ2_008, HL_3OUY_001, HL_3EPH_003, HL_3U5H_031, HL_2NRE_003, HL_1J1U_003, HL_4GCW_002, HL_3F4G_004, HL_2ZZM_004, HL_2ZNI_003, HL_1J2B_004, HL_4AQ7_003, HL_1U0B_003, HL_1J2B_002, HL_2QBG_019, HL_3RG5_004, HL_2DU6_003, HL_2DR8_001, HL_2BTE_008, HL_3Q1Q_011, HL_4FRN_001, HL_1GAX_006, HL_1QRS_003, HL_2AKE_003, HL_2BTE_004, HL_3OVA_001, HL_4FRG_001HL_3W3S_004

Children motifs

Child motifCommon motif instancesOnly in HL_72498.5Only in the child motif
HL_72498.6
Compare
HL_4A1B_015, HL_2CSX_003, HL_2AZX_003, HL_3VJR_002, HL_3V2F_018, HL_3VJR_001, HL_4A1B_030, HL_3F4G_004, HL_3V2F_030, HL_2DU3_003, HL_3ADC_004, HL_2ZUF_003, HL_2DER_006, HL_4FAW_001, HL_4GMA_002, HL_2D6F_006, HL_3AMU_003, HL_3AL0_003, HL_3ICQ_005, HL_2DR8_001, HL_2NRE_003, HL_3U5H_014, HL_3U5H_031, HL_1S72_034, HL_1U0B_003, HL_3RG5_004, HL_2NR0_004, HL_2AKE_003, HL_2ZZN_003, HL_3F4G_001, HL_3A2K_003, HL_2CV1_006, HL_3AM1_004, HL_1WZ2_008, HL_3OUY_001, HL_3EPH_003, HL_1QU2_003, HL_1J1U_003, HL_4GCW_002, HL_4GXY_002, HL_2QBG_034, HL_4AQ7_003, HL_2ZZM_004, HL_2ZNI_003, HL_1J2B_004, HL_4FRG_001, HL_1J2B_002, HL_2QBG_019, HL_3L0U_003, HL_3W3S_004, HL_2DU6_003, HL_3TUP_003, HL_2BTE_008, HL_3Q1Q_011, HL_4FRN_001, HL_1GAX_006, HL_1QRS_003, HL_3ADD_004, HL_2BTE_004, HL_3OVA_001, HL_2ZM5_003HL_2ZJR_017, HL_2ZJR_032HL_4IOA_031, HL_4IOA_017
Annotations
  • T-loop with 2 stacked bulged bases (22)
  • T-loop with 2 bulged bases not stacked (1)
  • Basepair signature
    cWW-tWH-R-R-R
    Intraclusteral linkage
    Min 0.03 | Avg 0.29 | Max 0.67
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    Mutual discrepancy heat map legend: