R3D Align

Query 4d24db4fc7071 finished in less than a minute

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Query summary

Molecule 1
PDB id: 1U9S, Chains: A, Nucleotides: all
Molecule 2
PDB id: 1NBS, Chains: B, Nucleotides: all
Iteration 1
d = 0.5, p = 3, β = 200
Iteration 2
d = 0.5, p = 9, β = 80

Local geometric similarity

Blue (low geometric discrepancy) indicates high 3D similarity. Red (high geometric discrepancy) indicates low 3D similarity. Bar Diagram Help
The arcs indicate basepairing interactions and are colored by type. Bar Diagram Help Advanced diagram is not available for this query.
Basepair interactions are annotated according to the Leontis-Westhof nomenclature and are colored by type. Basepair Table Help
Discrepancy color legend (low is better)
<0.1 <0.2 <0.3 <0.4 <0.5 <0.6 <0.7 <0.8 <0.9 <1.0 >=1.0
1U9S1NBS
------G86cWWC239
G76cWWC234C87cWWG238
G77cWWC233G88cWWC237
U78cWWA232A89cWWU236
G79cWWC231G90cWWC235
C80cWWG94C91cWWG112
C80cSSA208C91---
C81cWWG93C92ncWWA110
C81cSSA207C92---
C81---C92cWWG111
---G93U93cWWA110
A82cWWU92A94cWWU109
G83cWWC91G95cWWC108
G84cWWC90C96cWWG107
U85---------
A86---------
A87---------
C88---------
G89---------
------G97tSHA106
------A98---
------A99---
------G100tSWA103
------U101---
------C102---
------A103tWSG100
------U104---
------A105---
------A106tHSG97
C90cWWG84G107cWWC96
C91cWWG83C108cWWG95
U92cWWA82U109cWWA94
G93cWWC81A110ncWWC92
G93---A110cWWU93
---C81G111cWWC92
G94cWWC80G112cWWC91
G94tSSA208G112---
G95cWWC109G113cWWC131
C96cWWG107C114cWWG129
G97cWWC106A115cWWU128
G98cWWC105G116cWWC127
G99cWWC104---G126
------U117---
G100tSHA103C118---
G100---C118cWWG125
U101---------
A102---------
A103tHSG100---C118
------U119---
------U120---
---G100G125cWWC118
C104cWWG99G126---
C105cWWG98C127cWWG116
C106cWWG97U128cWWA115
G107cWWC96G129cWWC114
A108---A130---
C109cWWG95C131cWWG113
G110cWWC230G132cWWC234
G110---G132tSSA178
G111cWWC229G133cWWC233
A112ntSHA227C134tWHA231
A113---------
A114---------
------A135cWWU174
------G136cWWC173
------G137cWWC172
------A138cWWU171
------A139tSHA170
------A140---
------A141tHHA167
------A142---
------A143cWWU165
------G144cWWC164
------C145cWWG163
------C146cWWG162
------C146cSSA208
------U147tWHA160
------U147cSSA207
------A148cSHC149
------C149cHSA148
------G150cWWU159
------U151cWWA158
------C152cWWG157
------U153tSWG156
------U154---
------C155---
------G156tWSU153
------G157cWWC152
------A158cWWU151
------U159cWWG150
------A160tHWU147
------A160tWWA206
------U161---
------G162cWWC146
------G162tSSA208
------G163cWWC145
------C164cWWG144
------U165cWWA143
------G166---
------A167tHHA141
------G168cSHU169
------U169cHSG168
------A170tHSA139
------U171cWWA138
------C172cWWG137
------C173cWWG136
------U174cWWA135
------U175tWWA179
------G176---
------A177---
---G110A178tSSG132
------A179tWWU175
G115cWWC228G180cWWC232
U116cWWA227U181cWWA231
G117cWWC224G182cWWU228
C118cWWG223C183cWWG227
C119tSSA173C184tSSA221
C119cWWG222C184cWWG226
A120tHHA172A185ntHHG220
C121---C186---
A122tWHA126A187ntWHA191
A122cSSU170A187cSSU218
G123tSWA174G188tSWA222
A124---U189cWSG196
G125cSSA129G190---
A126tHWA122A191ntHWA187
A126tWSG171A191ntWSG219
A126ncSHA127A191cSHC192
A127ncHSA126C192cHSA191
A127---C192cWHG224
G128---------
A129cSSG125---G190
A129tSSA174---A222
G130---------
A131cSHC132------
C132cHSA131------
C132cWWG168------
C133cWWG167------
G134cWWC164------
C135cWWG163------
C135cSSA185------
C136cWWG162------
C136cSSA184------
A137---------
G138---------
C139cWWG161------
G140cWWC160------
---C175G193cHWC223
------A194---
------A195---
---A124G196cSWU189
G141cWWU158U197cWWA216
C142cWWG157C198cWWG215
C143cWWG156U199cWWA214
G144cWWC155C200cWWG213
G145cWWC154A201cWWU212
G146cWWC153C202cWWG211
G147cWWC152U203cWWG210
------A204cWWU209
------G205tSHA208
------A206tWWA160
------A207cSSU147
------A208cSSC146
------A208tSSG162
------A208tHSG205
------U209cWWA204
C152cWWG147G210cWWU203
C153cWWG146G211cWWC202
C154cWWG145U212cWWA201
C155cWWG144G213cWWC200
G156cWWC143A214cWWU199
G157cWWC142G215cWWC198
U158cWWG141A216cWWU197
G159---------
C160cWWG140------
G161cWWC139------
G162cWWC136------
G163cWWC135------
G163tSSA185------
C164cWWG134------
A165---------
A166---------
G167cWWC133------
G168cWWC132------
G169---G217---
U170cSSA122U218cSSA187
U170tWHA174U218tWHA222
G171tSWA126G219ntSWA191
A172tHHA120G220ntHHA185
A173tSSC119A221tSSC184
A174tWSG123A222tWSG188
A174tSSA129A222---
A174tHWU170A222tHWU218
A174ncSHC175A222cSHC223
C175---C223cWHG193
C175ncHSA174C223cHSA222
G176cWWC194------
G177cHWG188------
G177cWWC193------
C178cWWA192------
G179cWWC191------
G180cWWC190------
G181cWWC189------
G182---------
U183---------
A184cSSC136------
A185cSSC135------
A185tSSG163------
G186---------
A187---------
G188cWHG177------
G188tHWC193------
C189cWWG181------
C190cWWG180------
C191cWWG179------
A192cWWC178------
C193cWWG177------
C193tWHG188------
C194cWWG176------
C194tWHG218------
G195cWWC219------
C196cWWG217------
C197cWWG216------
U198cWWG215------
G199cWWC214------
G200cWWC213------
C201cWWG212------
C202cWWG211------
U203cWWA210------
G204cWWC209------
G205tSHA208------
C206---------
A207cSSC81---C92
A208cSSC80---C91
A208tSSG94---G112
A208tHSG205------
C209cWWG204------
A210cWWU203------
G211cWWC202------
G212cWWC201------
C213cWWG200------
C214cWWG199------
G215cWWU198------
G216cWWC197------
G217cWWC196------
G217cSWA220------
G218tHWC194------
C219cWWG195------
A220cWSG217------
C221---------
---A127G224cHWC192
------C225---
G222cWWC119G226cWWC184
G223cWWC118G227cWWC183
C224cWWG117U228cWWG182
A225---A229---
A226---------
------A230---
A227cWWU116A231cWWU181
A227ntHSA112A231tHWC134
C228cWWG115C232cWWG180
C229cWWG111C233cWWG133
C230cWWG110C234cWWG132
C231cWWG79C235cWWG90
A232cWWU78U236cWWA89
C233cWWG77C237cWWG88
C234cWWG76G238cWWC87
------C239cWWG86
 
-GGUGCC-AGGUAACG----------CCUG-GGCGGG-GUAA---CCCGACGGAAA------------------------
GCGAGCCUAGC-----GAAGUCAUAAGCUAGGGCAG-UC---UUGGCUGACGGC--AGGAAAAAAGCCUACGUCUUCGGA

---------------------GUGCCACAGAGAAGAGACCGCCAGCG----GCCGGGG------CCCCGGUGCGGGCAAG
UAUGGCUGAGUAUCCUUGAAAGUGCCACAGUGAC-------------GAAGUCUCACUAGAAAUGGUGAGA---------

GGUGAAACGGCGGGGUAAGAGCCCACCGCCUGGCCUGGCAACAGGCCGGGGCAC--GGCAA-ACCCCACC-
-GUGGAAC----------------------------------------------GCGGUA-AACCCCUCGC

Summary statistics

Summary statistics is not available for this query.